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Sample records for association analyses pga

  1. Determinants of Club Head Speed in PGA Professional Golfers.

    Science.gov (United States)

    Lewis, Adam L; Ward, Nick; Bishop, Chris; Maloney, Sean; Turner, Anthony N

    2016-08-01

    Turner, AN. Determinants of club head speed in PGA professional golfers. J Strength Cond Res 30(8): 2266-2270, 2016-Club head speed (CHS) has been significantly correlated with golf performance, but only in amateurs. The purpose of this study therefore, was to investigate the relationship between field-based measures of strength and power with CHS in Professional Golfers Association (PGA) professional golfers, and further determine differences between age groups. A correlation design was used to test relationships between squat jump (SJ), seated medicine ball throw (SMBT), rotational medicine ball throw (RMBT), and CHS. Twenty participants volunteered to take part in the study (age, 31.95 ± 8.7 years; height, 182.75 ± 6.88 cm; mass, 90.47 ± 15.6 kg). Intraclass correlation coefficients reported high reliability for performance variables (r = 0.85-0.95). Significant correlations (p professionals professionals >30 (n = 10; 39.7 ± 5.5 years). Correlations to CHS for 30 had significant correlations to CHS not only in SMBT (r = 0.881) and SJ (r = 0.729), but also in RMBT (r = 0.642). The results of this study suggest that SJ and SMBT have the largest contribution to CHS in PGA professional golfers. When comparing age groups, it appears that younger golfers (30 years) utilize more upper body strength. Results suggest that strength-based leg exercises and power-based chest exercises may improve CHS in professional golfers. PMID:26849785

  2. Phenotype-genotype association grid: a convenient method for summarizing multiple association analyses

    Directory of Open Access Journals (Sweden)

    O'Donnell Christopher J

    2006-05-01

    Full Text Available Abstract Background High-throughput genotyping generates vast amounts of data for analysis; results can be difficult to summarize succinctly. A single project may involve genotyping many genes with multiple variants per gene and analyzing each variant in relation to numerous phenotypes, using several genetic models and population subgroups. Hundreds of statistical tests may be performed for a single SNP, thereby complicating interpretation of results and inhibiting identification of patterns of association. Results To facilitate visual display and summary of large numbers of association tests of genetic loci with multiple phenotypes, we developed a Phenotype-Genotype Association (PGA grid display. A database-backed web server was used to create PGA grids from phenotypic and genotypic data (sample sizes, means and standard errors, P-value for association. HTML pages were generated using Tcl scripts on an AOLserver platform, using an Oracle database, and the ArsDigita Community System web toolkit. The grids are interactive and permit display of summary data for individual cells by a mouse click (i.e. least squares means for a given SNP and phenotype, specified genetic model and study sample. PGA grids can be used to visually summarize results of individual SNP associations, gene-environment associations, or haplotype associations. Conclusion The PGA grid, which permits interactive exploration of large numbers of association test results, can serve as an easily adapted common and useful display format for large-scale genetic studies. Doing so would reduce the problem of publication bias, and would simplify the task of summarizing large-scale association studies.

  3. A linear stepping PGA used in CMOS image sensors

    International Nuclear Information System (INIS)

    A low power linear stepping digital programming gain amplifier (PGA) is designed for CMOS image sensors. The PGA consists of three stages with gain range from one to nine. The gain is divided into four regions and each range has 128 linear steps. Power consumption of the PGA is saved by good tradeoff between variation of amplifier feedback coefficient, pipeline stages and gain regions. With thermometer-binary mixed coding and linear pipeline gain stepping, the load capacitance keeps constant when the gain of one stage is changed. The PGA is designed in the SMIC 0.18 μm process. Simulation results show that the power consumption is 3.2 mW with 10 bit resolution and 10 MSPS sampling rate. The PGA has been embedded in a 0.3 megapixel CMOS image sensors and fabricated successfully.

  4. A linear stepping PGA used in CMOS image sensors

    Institute of Scientific and Technical Information of China (English)

    徐江涛; 李斌桥; 赵士彬; 李红乐; 姚素英

    2009-01-01

    A low power linear stepping digital programming gain amplifier (PGA) is designed for CMOS image sensors. The PGA consists of three stages with gain range from one to nine. The gain is divided into four regions and each range has 128 linear steps. Power consumption of the PGA is saved by good tradeoff between variation of amplifier feedback coefficient, pipeline stages and gain regions. With thermometer-binary mixed coding and linear pipeline gain stepping, the load capacitance keeps constant when the gain of one stage is changed. The PGA is designed in the SMIC 0.18μm process. Simulation results show that the power consumption is 3.2 mW with 10 bit resolution and 10 MSPS sampling rate. The PGA has been embedded in a 0.3 megapixel CMOS image sensors and fabricated successfully.

  5. ePGA: A Web-Based Information System for Translational Pharmacogenomics

    Science.gov (United States)

    Lakiotaki, Kleanthi; Kartsaki, Evgenia; Kanterakis, Alexandros; Katsila, Theodora; Patrinos, George P.; Potamias, George

    2016-01-01

    One of the challenges that arise from the advent of personal genomics services is to efficiently couple individual data with state of the art Pharmacogenomics (PGx) knowledge. Existing services are limited to either providing static views of PGx variants or applying a simplistic match between individual genotypes and existing PGx variants. Moreover, there is a considerable amount of haplotype variation associated with drug metabolism that is currently insufficiently addressed. Here, we present a web-based electronic Pharmacogenomics Assistant (ePGA; http://www.epga.gr/) that provides personalized genotype-to-phenotype translation, linked to state of the art clinical guidelines. ePGA's translation service matches individual genotype-profiles with PGx gene haplotypes and infers the corresponding diplotype and phenotype profiles, accompanied with summary statistics. Additional features include i) the ability to customize translation based on subsets of variants of clinical interest, and ii) to update the knowledge base with novel PGx findings. We demonstrate ePGA's functionality on genetic variation data from the 1000 Genomes Project. PMID:27631363

  6. ePGA: A Web-Based Information System for Translational Pharmacogenomics.

    Science.gov (United States)

    Lakiotaki, Kleanthi; Kartsaki, Evgenia; Kanterakis, Alexandros; Katsila, Theodora; Patrinos, George P; Potamias, George

    2016-01-01

    One of the challenges that arise from the advent of personal genomics services is to efficiently couple individual data with state of the art Pharmacogenomics (PGx) knowledge. Existing services are limited to either providing static views of PGx variants or applying a simplistic match between individual genotypes and existing PGx variants. Moreover, there is a considerable amount of haplotype variation associated with drug metabolism that is currently insufficiently addressed. Here, we present a web-based electronic Pharmacogenomics Assistant (ePGA; http://www.epga.gr/) that provides personalized genotype-to-phenotype translation, linked to state of the art clinical guidelines. ePGA's translation service matches individual genotype-profiles with PGx gene haplotypes and infers the corresponding diplotype and phenotype profiles, accompanied with summary statistics. Additional features include i) the ability to customize translation based on subsets of variants of clinical interest, and ii) to update the knowledge base with novel PGx findings. We demonstrate ePGA's functionality on genetic variation data from the 1000 Genomes Project. PMID:27631363

  7. Analysing uncertainties associated with flood hazard assessment

    Science.gov (United States)

    Neuhold, Clemens; Stanzel, Philipp; Nachtnebel, Hans-Peter

    2010-05-01

    Risk zonation maps are mostly derived from design floods which propagate through the study area. The respective delineation of inundated flood plains is a fundamental input for the flood risk assessment of exposed objects. It is implicitly assumed that the river morphology will not vary, even though it is obvious that the river bed elevation can quickly and drastically change during flood events. The objectives of this study were (1) to integrate river bed dynamics into flood risk assessment and (2) to quantify uncertainties associated to flood hazard modelling by means of (i) hydrology (input hydrographs) (ii) sediment transport (torrential input, river bed elevation) (iii) hydrodynamics (water surface levels) The proposed concept was applied to the River Ill in the Western Austrian Alps. In total, 138 flood and associated sediment transport scenarios were considered, simulated and illustrated for the main river stem. The calculated morphological changes of the river bed during peak flow provided a basis to estimate the variability of possible water surface levels and inundated areas, necessary for flood hazard assessment. The applied multi-scenario approach was compared to the normatively defined design flood event to account for the uncertainty of flood risk management decisions based on a few scenarios. Due to the incorporation of river morphological changes and variations in rainfall characteristics into flood hazard assessment, for 12 % of considered cross sections inundations were calculated where safety was expected.

  8. Orthopaedic applications for PLA-PGA biodegradable polymers.

    Science.gov (United States)

    Athanasiou, K A; Agrawal, C M; Barber, F A; Burkhart, S S

    1998-10-01

    Biodegradable polymers, especially those belonging to the family of polylactic acid (PLA) and polyglycolic acid (PGA), play an increasingly important role in orthopaedics. These polymers degrade by hydrolysis and enzymatic activity and have a range of mechanical and physical properties that can be engineered appropriately to suit a particular application. Their degradation characteristics depend on several parameters including their molecular structure, crystallinity, and copolymer ratio. These biomaterials are also rapidly gaining recognition in the fledging field of tissue engineering because they can be fashioned into porous scaffolds or carriers of cells, extracellular matrix components, and bioactive agents. Although their future appears to be bright, several questions regarding the biocompatibility of these materials linger and should be addressed before their wide-scale use. In the context of musculoskeletal tissue, this report provides a comprehensive review of properties and applications of biodegradable PLA/PGA polymers and their copolymers. Of special interest are orthopaedic applications, biocompatibility studies, and issues of sterilization and storage of these versatile biomaterials. Also discussed is the fact that terms such as PLA, PGA, or PLA-PGA do not denote one material, but rather a large family of materials that have a wide range of differing bioengineering properties and concomitant biological responses. An analysis of some misconceptions, problems, and potential solutions is also provided. PMID:9788368

  9. Aggiornamento relazioni fra l'intensità macrosismica e PGA. Progetto INGV-DPC S1, Deliverable D11.

    OpenAIRE

    Gomez Capera, A. A.; Istituto Nazionale di Geofisica e Vulcanologia, Sezione Milano-Pavia, Milano, Italia; Albarello, D.; Dipartamento di Scienze della Terra, Università di Siena; Gasperini, P.; Dipartimento di Fisica, Settore Geofisica, Università di Bologna, Bologna, Italy

    2007-01-01

    Empirical relationships between macroseismic intensity and PGA are useful for comparing the macroseismic observations to recorded peak ground motions and for comparing seismic hazard assessment in terms of intensity with those in PGA. In literature is observed that despite the intensity correlate fairly well with PGA, the relationships I-PGA is the only mathematical instrumental to convert seismic hazard assessment in terms of intensity to PGA. Not many studies deal with the relationship ...

  10. Exploring clinical associations using '-omics' based enrichment analyses.

    Directory of Open Access Journals (Sweden)

    David A Hanauer

    Full Text Available BACKGROUND: The vast amounts of clinical data collected in electronic health records (EHR is analogous to the data explosion from the "-omics" revolution. In the EHR clinicians often maintain patient-specific problem summary lists which are used to provide a concise overview of significant medical diagnoses. We hypothesized that by tapping into the collective wisdom generated by hundreds of physicians entering problems into the EHR we could detect significant associations among diagnoses that are not described in the literature. METHODOLOGY/PRINCIPAL FINDINGS: We employed an analytic approach original developed for detecting associations between sets of gene expression data, called Molecular Concept Map (MCM, to find significant associations among the 1.5 million clinical problem summary list entries in 327,000 patients from our institution's EHR. An odds ratio (OR and p-value was calculated for each association. A subset of the 750,000 associations found were explored using the MCM tool. Expected associations were confirmed and recently reported but poorly known associations were uncovered. Novel associations which may warrant further exploration were also found. Examples of expected associations included non-insulin dependent diabetes mellitus and various diagnoses such as retinopathy, hypertension, and coronary artery disease. A recently reported association included irritable bowel and vulvodynia (OR 2.9, p = 5.6x10(-4. Associations that are currently unknown or very poorly known included those between granuloma annulare and osteoarthritis (OR 4.3, p = 1.1x10(-4 and pyloric stenosis and ventricular septal defect (OR 12.1, p = 2.0x10(-3. CONCLUSIONS/SIGNIFICANCE: Computer programs developed for analyses of "-omic" data can be successfully applied to the area of clinical medicine. The results of the analysis may be useful for hypothesis generation as well as supporting clinical care by reminding clinicians of likely problems associated with a

  11. PGA-incorporated collagen: Toward a biodegradable composite scaffold for bone-tissue engineering.

    Science.gov (United States)

    Toosi, Shirin; Naderi-Meshkin, Hojjat; Kalalinia, Fatemeh; Peivandi, Mohammad Taghi; HosseinKhani, Hossein; Bahrami, Ahmad Reza; Heirani-Tabasi, Asieh; Mirahmadi, Mahdi; Behravan, Javad

    2016-08-01

    Nowadays composite scaffolds based on synthetic and natural biomaterials have got attention to increase healing of non-union bone fractures. To this end, different aspects of collagen sponge incorporated with poly(glycolic acid) (PGA) fiber were investigated in this study. Collagen solution (6.33 mg/mL) with PGA fibers (collagen/fiber ratio [w/w]: 4.22, 2.11, 1.06, 0.52) was freeze-dried, followed by dehydrothermal cross-linking to obtain collagen sponge incorporating PGA fibers. Properties of scaffold for cell viability, proliferation, and differentiation of mesenchymal stem cells (MSCs) were evaluated. Scanning electron microscopy showed that collagen sponge exhibited an interconnected pore structure with an average pore size of 190 μm, irrespective of PGA fiber incorporation. The collagen-PGA sponge was superior to the original collagen sponge in terms of the initial attachment, proliferation rate, and osteogenic differentiation of the bone marrow-MSCs (BM-MSC). The shrinkage of sponges during cell culture was significantly suppressed by fiber incorporation. Incorporation of PGA fiber is a simple and promising way to reinforce collagen sponge without impairing biocompatibility. © 2016 Wiley Periodicals, Inc. J Biomed Mater Res Part A: 104A: 2020-2028, 2016. PMID:27059133

  12. Clinical analyses of perinuclear antineutrophil cytoplasmic antibody associated hypertrophic pachymeningitis

    Institute of Scientific and Technical Information of China (English)

    赵鹏

    2013-01-01

    Objective To explore the clinical characteristics,diagnosis,treatment and prognosis of perinuclear antineutrophil cytoplasmic antibody(p-ANCA)associated hypertrophic pachymeningitis.Methods A retrospective study

  13. GEMBASSY: an EMBOSS associated software package for comprehensive genome analyses

    OpenAIRE

    Itaya, Hidetoshi; Oshita, Kazuki; Arakawa, Kazuharu; Tomita, Masaru

    2013-01-01

    The popular European Molecular Biology Open Software Suite (EMBOSS) currently contains over 400 tools used in various bioinformatics researches, equipped with sophisticated development frameworks for interoperability and tool discoverability as well as rich documentations and various user interfaces. In order to further strengthen EMBOSS in the fields of genomics, we here present a novel EMBOSS associated software (EMBASSY) package named GEMBASSY, which adds more than 50 analysis tools from t...

  14. Amphiphilic γ-PGA nanoparticles administered on rat middle ear mucosa produce adjuvant-like immunostimulation in vivo

    DEFF Research Database (Denmark)

    Nilsson, Johan S; Broos, Sissela; Akagi, Takami;

    2014-01-01

    CONCLUSION: Amphiphilic biodegradable nanoparticles (NPs) composed of poly(γ-glutamic acid) conjugated with L-phenylalanine ethylester (γ-PGA-Phe NPs) applied on the rat middle ear mucosa produce an inflammatory type 1 response. The observation is of relevance for the use of γ-PGA-Phe NPs...

  15. Composite PLGA/AgNpPGA/AscH nanospheres with combined osteoinductive, antioxidative, and antimicrobial activities.

    Science.gov (United States)

    Stevanović, Magdalena; Uskoković, Vuk; Filipović, Miloš; Škapin, Srečo D; Uskoković, Dragan

    2013-09-25

    The global rise in the resistance of pathogens to conventional antibiotics has created an intensive search for alternative materials with antimicrobial properties. This study is performed with an intention to investigate the combined effects of poly(l-glutamic acid)-capped silver nanoparticles (AgNpPGA) and ascorbic acid (AscH) encapsulated within freeze-dried poly(lactide-co-glycolide) (PLGA) nanospheres to obtain a nanomaterial with simultaneous osteoinductive, antioxidative, and prolonged antimicrobial properties. The influence of PLGA/AgNpPGA/AscH particles on (i) viability and superoxide production of human umbilical vein endothelial cells in vitro, (ii) morphology and expression of osteogenic markers in osteoblastic MC3T3-E1 cells in vitro, and (iii) antimicrobial activity against a Gram-positive bacterium, methicillin-resistant Staphylococcus aureus, and a Gram-negative bacterium, Escherichia coli, was investigated. PLGA/AgNpPGA/AscH nanoparticles showed a superior and extended antibacterial activity against both types of bacteria. The nanoparticles appeared to be capable of delivering ascorbate to the cells, which was evidenced by the significant decrease in the level of superoxides in human umbilical vein endothelial cells and which could have a therapeutic potential in preventing oxidative stress. PLGA/AgNpPGA/AscH nanoparticles had a positive effect on MC3T3-E1 osteoblastic cells in vitro, promoting: (i) an intimate contact with the cells and preservation of their healthy morphologies; (ii) unreduced cell viability; and (iii) multiple-fold upregulation of two osteogenic markers: osteocalcin and type I procollagen. It is concluded that PLGA/AgNpPGA/AscH nanospheres present a promising new material for the treatment of infections and use in wound dressings and other prophylactic applications.

  16. The Quality of Meta-Analyses of Genetic Association Studies: A Review With Recommendations

    OpenAIRE

    Minelli, Cosetta; John R. Thompson; Abrams, Keith R; Thakkinstian, Ammarin; Attia, John

    2009-01-01

    Although there has been a rapid rise in the publication of meta-analyses of genetic association studies, little is known about their methodological quality. The authors reviewed the quality of 120 randomly selected genetic meta-analyses published between 2005 and 2007. Data extracted included issues of general relevance and other issues specific to genetic epidemiology. Quality was markedly poorer in the 26% of the meta-analyses that accompanied a report on a primary study. Such meta-analyses...

  17. Influence of weak motion data to magnitude dependence of PGA prediction model in Austria

    Science.gov (United States)

    Jia, Yan

    2015-04-01

    Data recorded by the STS2-sensors at the Austrian Seismic Network were differentiated and used to derive the PGA prediction model for Austria (Jia and Lenhardt, 2010). Before using it to our hazard assessment and real time shakemap, it is necessary to validate this model and obtain a deep understanding about it. In this paper, influence of weak motion data to the magnitude dependence of our prediction model was studied. In addition, spatial PGA residuals between the measurements and predictions were investigated as well. There are 127 earthquakes with a magnitude between 3 and 5.4 that were used to derive the PGA prediction model published in 2011. Unfortunately, 90% of used PGA measurements were made for the events with a magnitude smaller than 4. Only ten quakes among them have a magnitude larger than 4, which is the important magnitude range that needs our attention and hazard assessment. In this investigation, 127 earthquakes were divided into two groups: the first group only includes events with a magnitude smaller than 4, while the second group contains quakes with a magnitude larger than 4. By using the same modeling for estimating PGA attenuation in 2011, coefficients of the model were inverted from the measurements in two groups and compared to the one based on the complete data set. It was found that the group with the weak quakes returned results that only have small differences to the one from all 127 events, while the group with strong quakes (ml> 4) gave greater magnitude dependence than the model published in 2011. The distance coefficients stayed nearly unchanged for all three inversions. As the second step, spatial PGA residuals between the measurements and the predictions from our model were investigated. As explained in Jia and Lenhardt (2013), there are some differences in the site amplifications between the West- and the East-Austria. For a fair comparison, residuals were normalized for each station before the investigation. Then normalized

  18. PGA and structural dynamics input motion at a given site

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    The computation of the representative ground motions, to be used as input for the dynamic analyses of a struc-ture at a particular site, can be approached by several methods. The choice of the approach depends on two factors: the da-ta available and the type of problem to be solved. This paper reports the experience of the authors in approaching a specificcase study: the Southern Memnon Colossus, located in Luxor, Egypt. The results are of interest when the hazard analysisestimation in developing countries and the safeguard of cultural heritage are concerned. Monuments have to be treated asimportant structures, due to their historical and economical value. Hence, standard procedures of probabilistic seismic haz-ard analysis for the seismic classification of common buildings have to be disregarded. On the other hand, the consequencesof the collapse of a monument are not comparable to those related to structures such as nuclear power plants and large dams,for which the deterministic seismic hazard analysis provides a straightforward framework for evaluation of the worst caseone, is adopted. Its stochastic component can capture significant characteristics of earthquakes, primarily the frequencycontents which depend on the magnitude (often referred to as the earthquake scaling law).

  19. Transcriptome Profiling of Wild-Type and pga-Knockout Mutant Strains Reveal the Role of Exopolysaccharide in Aggregatibacter actinomycetemcomitans.

    Directory of Open Access Journals (Sweden)

    Mayilvahanan Shanmugam

    Full Text Available Exopolysaccharides have a diverse set of functions in most bacteria including a mechanistic role in protecting bacteria against environmental stresses. Among the many functions attributed to the exopolysaccharides, biofilm formation, antibiotic resistance, immune evasion and colonization have been studied most extensively. The exopolysaccharide produced by many Gram positive as well as Gram negative bacteria including the oral pathogen Aggregatibacter actinomycetemcomitans is the homopolymer of β(1,6-linked N-acetylglucosamine. Recently, we reported that the PGA-deficient mutant of A. actinomycetemcomitans failed to colonize or induce bone resorption in a rat model of periodontal disease, and the colonization genes, apiA and aae, were significantly down regulated in the mutant strain. To understand the role of exopolysaccharide and the pga locus in the global expression of A. actinomycetemcomitans, we have used comparative transcriptome profiling to identify differentially expressed genes in the wild-type strain in relation to the PGA-deficient strain. Transcriptome analysis revealed that about 50% of the genes are differently expressed (P 1.5. Our study demonstrated that the absence of the pga locus affects the genes involved in peptidoglycan recycling, glycogen storage, and virulence. Further, using confocal microscopy and plating assays, we show that the viability of pga mutant strain is significantly reduced during biofilm growth. Thus, this study highlights the importance of pga genes and the exopolysaccharide in the virulence of A. actinomycetemcomitans.

  20. Synthesis and Structural Characterization of Bioactive PHA and γ-PGA Oligomers for Potential Applications as a Delivery System

    Directory of Open Access Journals (Sweden)

    Iwona Kwiecień

    2016-04-01

    Full Text Available The (transesterification reaction of bacterial biopolymers with a selected bioactive compound with a hydroxyl group was applied as a convenient method for obtaining conjugates of such compound. Tyrosol, a naturally occurring phenolic compound, was selected as a model of a bioactive compound with a hydroxyl group. Selected biodegradable polyester and polyamide, poly(3-hydroxybutyrate-co-4-hydroxybutyrate (P(3HB-co-4HB and poly-γ-glutamic acid (γ-PGA, respectively, were used. The (transesterification reactions were carried out in melt mediated by 4-toluenesulfonic acid monohydrate. The structures of (transesterification products were established at the molecular level with the aid of ESI-MS2 (electrospray ionization tandem mass spectrometry and/or 1H NMR (nuclear magnetic resonance techniques. Performed analyses confirmed that the developed method leads to the formation of conjugates in which bioactive compounds are covalently bonded to biopolymer chains. The amount of covalently bonded bioactive compounds in the resulting conjugates depends on the type of biopolymers applied in synthesis.

  1. Abundance analysis, spectral variability, and search for the presence of a magnetic field in the typical PGa star HD19400

    CERN Document Server

    Hubrig, S; Gonzalez, J F; Carroll, T A; Ilyin, I; Schöller, M; Drake, N A; Korhonen, H; Briquet, M

    2014-01-01

    The aim of this study is to carry out an abundance determination, to search for spectral variability and for the presence of a weak magnetic field in the typical PGa star HD19400. High-resolution, high signal-to-noise HARPS spectropolarimetric observations of HD19400 were obtained at three different epochs in 2011 and 2013. For the first time, we present abundances of various elements determined using an ATLAS12 model, including the abundances of a number of elements not analysed by previous studies, such as Ne I, Ga II, and Xe II. Several lines of As II are also present in the spectra of HD19400. To study the variability, we compared the behaviour of the line profiles of various elements. We report on the first detection of anomalous shapes of line profiles belonging to Mn and Hg, and the variability of the line profiles belonging to the elements Hg, P, Mn, Fe, and Ga. We suggest that the variability of the line profiles of these elements is caused by their non-uniform surface distribution, similar to the pr...

  2. Quality control and conduct of genome-wide association meta-analyses

    NARCIS (Netherlands)

    Winkler, Thomas W; Day, Felix R; Croteau-Chonka, Damien C; Wood, Andrew R; Locke, Adam E; Mägi, Reedik; Ferreira, Teresa; Fall, Tove; Graff, Mariaelisa; Justice, Anne E; Luan, Jian'an; Gustafsson, Stefan; Randall, Joshua C; Vedantam, Sailaja; Workalemahu, Tsegaselassie; Kilpeläinen, Tuomas O; Scherag, André; Esko, Tonu; Kutalik, Zoltán; Heid, Iris M; Loos, Ruth J F; Wolffenbuttel, Bruce

    2014-01-01

    Rigorous organization and quality control (QC) are necessary to facilitate successful genome-wide association meta-analyses (GWAMAs) of statistics aggregated across multiple genome-wide association studies. This protocol provides guidelines for (i) organizational aspects of GWAMAs, and for (ii) QC a

  3. Quality control and conduct of genome-wide association meta-analyses

    DEFF Research Database (Denmark)

    Winkler, Thomas W; Day, Felix R; Croteau-Chonka, Damien C;

    2014-01-01

    Rigorous organization and quality control (QC) are necessary to facilitate successful genome-wide association meta-analyses (GWAMAs) of statistics aggregated across multiple genome-wide association studies. This protocol provides guidelines for (i) organizational aspects of GWAMAs, and for (ii) Q...

  4. Seismic Intensity, PGA and PGV for the South Napa Earthquake, August 24, 2014

    Science.gov (United States)

    Chen, S.; Pickering, A.; Mooney, W. D.; Crewdson, E.

    2014-12-01

    Numerous studies have investigated the statistical relationship between Modified Mercalli Intensity (MMI) and peak ground acceleration (PGA) and peak ground velocity (PGV). The Mw 6.0 South Napa (California) earthquake of August 24, 2014 provides valuable data to examine these relationships for both urban and rural environments within northern California. The finite fault model (D. Dreger, 2014) indicates that the fault rupture propagated predominantly NNW and up-dip from a 11-km-deep hypocenter. The epicentral location was 8 km SSW of downtown Napa. Recorded PGA north of the epicenter is as high as 600 cm/s2 and PGV locally reaches 80 cm/s. Field studies by two teams of investigators were conducted on August 24-26 and September 8-11, 2014 to assign MMI values at 108 sites. The highest MMI values are strongly localized along the NNW-SSE rupture trend north of the epicenter. Parts of the city of Napa and some communities several km farther north on Dry Creek Road were found to have experienced shaking intensities of MMI VII to VIII. The observed effects include houses moved off their foundations, chimney collapse or damage, cracked foundations and/or interior walls, broken windows, and the lateral displacement of heavy furniture. Communities to the east and west of this zone of high seismic intensity reported significantly lower values of MMI, typically IV and V even at distances as close as 10 km from the mapped surface rupture. In comparison with previous estimates by Wald et al. (1999) and Dangkua and Cramer (2011), we find that MMI III-VIII uniformly correspond to significantly larger (>150%) PGA and PGV values, as reported by the Center for Engineering Strong Motion Data (2014). We attribute this observation to two primary factors: (1) improved earthquake engineering in the post-Loma Prieta earthquake era that has led to building construction, both new and retrofitted, that is more resistant to earthquake strong ground motions; and (2) a frequency band relevant

  5. Estimation of Peak Ground Acceleration (PGA) for Peninsular Malaysia using geospatial approach

    Science.gov (United States)

    Nouri Manafizad, Amir; Pradhan, Biswajeet; Abdullahi, Saleh

    2016-06-01

    Among the various types of natural disasters, earthquake is considered as one of the most destructive events which impose a great amount of human fatalities and economic losses. Visualization of earthquake events and estimation of peak ground motions provides a strong tool for scientists and authorities to predict and mitigate the aftereffects of earthquakes. In addition it is useful for some businesses like insurance companies to evaluate the amount of investing risk. Although Peninsular Malaysian is situated in the stable part of Sunda plate, it is seismically influenced by very active earthquake sources of Sumatra's fault and subduction zones. This study modelled the seismic zones and estimates maximum credible earthquake (MCE) based on classified data for period 1900 to 2014. The deterministic approach was implemented for the analysis. Attenuation equations were used for two zones. Results show that, the PGA produced from subduction zone is from 2-64 (gal) and from the fault zone varies from 1-191(gal). In addition, the PGA generated from fault zone is more critical than subduction zone for selected seismic model.

  6. Overexpression of PGA37/MYB118 and MYB115 promotes vegetative-to-embryonic transition in Arabidopsis

    Institute of Scientific and Technical Information of China (English)

    Xingchun Wang; Qi-Wen Niu; Chong Teng; Chao Li; Jinye Mu; Nam-Hai Chua; Jianru Zuo

    2009-01-01

    Formation of somatic embryos from non-germline cells is unique to higher plants and can be manipulated in a variety of species. Previous studies revealed that overexpression of several Arabidopsis genes, including WUSCHEL (WUS)/PLANT GROWTH ACTIVATOR6 (PGA6), BABY BOOM, LEAFY COTYLEDON1 (LEC1), and LEC2, is able to cause vegetative-to-embryonic transition or the formation of somatic embryos. Here, we report that a gain-offunction mutation in the Arabidopsis PGA37 gene, encoding the MYBI18 transcription factor, induced vegetative-toembryonic transition, the formation of somatic embryos from root explants, and an elevated LEC1 expression level.Double mutant analysis showed that WUS was not required for induction of somatic embryos by PGA37/MYB118.Iin addition, overexpression ofMYB115, a homolog of PGA37/MYB118, caused apga37-1ike phenotype. A mybll8 myb115 double mutant did not show apparent developmental abnormalities. Collectively, these results suggest that PGA37/MYB118 and MYB115 promote vegetative-to-embryonic transition, through a signaling pathway independent of WUS.

  7. Association analyses of 249,796 individuals reveal eighteen new loci associated with body mass index

    Science.gov (United States)

    Speliotes, Elizabeth K.; Willer, Cristen J.; Berndt, Sonja I.; Monda, Keri L.; Thorleifsson, Gudmar; Jackson, Anne U.; Allen, Hana Lango; Lindgren, Cecilia M.; Luan, Jian’an; Mägi, Reedik; Randall, Joshua C.; Vedantam, Sailaja; Winkler, Thomas W.; Qi, Lu; Workalemahu, Tsegaselassie; Heid, Iris M.; Steinthorsdottir, Valgerdur; Stringham, Heather M.; Weedon, Michael N.; Wheeler, Eleanor; Wood, Andrew R.; Ferreira, Teresa; Weyant, Robert J.; Segré, Ayellet V.; Estrada, Karol; Liang, Liming; Nemesh, James; Park, Ju-Hyun; Gustafsson, Stefan; Kilpeläinen, Tuomas O.; Yang, Jian; Bouatia-Naji, Nabila; Esko, Tõnu; Feitosa, Mary F.; Kutalik, Zoltán; Mangino, Massimo; Raychaudhuri, Soumya; Scherag, Andre; Smith, Albert Vernon; Welch, Ryan; Zhao, Jing Hua; Aben, Katja K.; Absher, Devin M.; Amin, Najaf; Dixon, Anna L.; Fisher, Eva; Glazer, Nicole L.; Goddard, Michael E.; Heard-Costa, Nancy L.; Hoesel, Volker; Hottenga, Jouke-Jan; Johansson, Åsa; Johnson, Toby; Ketkar, Shamika; Lamina, Claudia; Li, Shengxu; Moffatt, Miriam F.; Myers, Richard H.; Narisu, Narisu; Perry, John R.B.; Peters, Marjolein J.; Preuss, Michael; Ripatti, Samuli; Rivadeneira, Fernando; Sandholt, Camilla; Scott, Laura J.; Timpson, Nicholas J.; Tyrer, Jonathan P.; van Wingerden, Sophie; Watanabe, Richard M.; White, Charles C.; Wiklund, Fredrik; Barlassina, Christina; Chasman, Daniel I.; Cooper, Matthew N.; Jansson, John-Olov; Lawrence, Robert W.; Pellikka, Niina; Prokopenko, Inga; Shi, Jianxin; Thiering, Elisabeth; Alavere, Helene; Alibrandi, Maria T. S.; Almgren, Peter; Arnold, Alice M.; Aspelund, Thor; Atwood, Larry D.; Balkau, Beverley; Balmforth, Anthony J.; Bennett, Amanda J.; Ben-Shlomo, Yoav; Bergman, Richard N.; Bergmann, Sven; Biebermann, Heike; Blakemore, Alexandra I.F.; Boes, Tanja; Bonnycastle, Lori L.; Bornstein, Stefan R.; Brown, Morris J.; Buchanan, Thomas A.; Busonero, Fabio; Campbell, Harry; Cappuccio, Francesco P.; Cavalcanti-Proença, Christine; Chen, Yii-Der Ida; Chen, Chih-Mei; Chines, Peter S.; Clarke, Robert; Coin, Lachlan; Connell, John; Day, Ian N.M.; den Heijer, Martin; Duan, Jubao; Ebrahim, Shah; Elliott, Paul; Elosua, Roberto; Eiriksdottir, Gudny; Erdos, Michael R.; Eriksson, Johan G.; Facheris, Maurizio F.; Felix, Stephan B.; Fischer-Posovszky, Pamela; Folsom, Aaron R.; Friedrich, Nele; Freimer, Nelson B.; Fu, Mao; Gaget, Stefan; Gejman, Pablo V.; Geus, Eco J.C.; Gieger, Christian; Gjesing, Anette P.; Goel, Anuj; Goyette, Philippe; Grallert, Harald; Gräßler, Jürgen; Greenawalt, Danielle M.; Groves, Christopher J.; Gudnason, Vilmundur; Guiducci, Candace; Hartikainen, Anna-Liisa; Hassanali, Neelam; Hall, Alistair S.; Havulinna, Aki S.; Hayward, Caroline; Heath, Andrew C.; Hengstenberg, Christian; Hicks, Andrew A.; Hinney, Anke; Hofman, Albert; Homuth, Georg; Hui, Jennie; Igl, Wilmar; Iribarren, Carlos; Isomaa, Bo; Jacobs, Kevin B.; Jarick, Ivonne; Jewell, Elizabeth; John, Ulrich; Jørgensen, Torben; Jousilahti, Pekka; Jula, Antti; Kaakinen, Marika; Kajantie, Eero; Kaplan, Lee M.; Kathiresan, Sekar; Kettunen, Johannes; Kinnunen, Leena; Knowles, Joshua W.; Kolcic, Ivana; König, Inke R.; Koskinen, Seppo; Kovacs, Peter; Kuusisto, Johanna; Kraft, Peter; Kvaløy, Kirsti; Laitinen, Jaana; Lantieri, Olivier; Lanzani, Chiara; Launer, Lenore J.; Lecoeur, Cecile; Lehtimäki, Terho; Lettre, Guillaume; Liu, Jianjun; Lokki, Marja-Liisa; Lorentzon, Mattias; Luben, Robert N.; Ludwig, Barbara; Manunta, Paolo; Marek, Diana; Marre, Michel; Martin, Nicholas G.; McArdle, Wendy L.; McCarthy, Anne; McKnight, Barbara; Meitinger, Thomas; Melander, Olle; Meyre, David; Midthjell, Kristian; Montgomery, Grant W.; Morken, Mario A.; Morris, Andrew P.; Mulic, Rosanda; Ngwa, Julius S.; Nelis, Mari; Neville, Matt J.; Nyholt, Dale R.; O’Donnell, Christopher J.; O’Rahilly, Stephen; Ong, Ken K.; Oostra, Ben; Paré, Guillaume; Parker, Alex N.; Perola, Markus; Pichler, Irene; Pietiläinen, Kirsi H.; Platou, Carl G.P.; Polasek, Ozren; Pouta, Anneli; Rafelt, Suzanne; Raitakari, Olli; Rayner, Nigel W.; Ridderstråle, Martin; Rief, Winfried; Ruokonen, Aimo; Robertson, Neil R.; Rzehak, Peter; Salomaa, Veikko; Sanders, Alan R.; Sandhu, Manjinder S.; Sanna, Serena; Saramies, Jouko; Savolainen, Markku J.; Scherag, Susann; Schipf, Sabine; Schreiber, Stefan; Schunkert, Heribert; Silander, Kaisa; Sinisalo, Juha; Siscovick, David S.; Smit, Jan H.; Soranzo, Nicole; Sovio, Ulla; Stephens, Jonathan; Surakka, Ida; Swift, Amy J.; Tammesoo, Mari-Liis; Tardif, Jean-Claude; Teder-Laving, Maris; Teslovich, Tanya M.; Thompson, John R.; Thomson, Brian; Tönjes, Anke; Tuomi, Tiinamaija; van Meurs, Joyce B.J.; van Ommen, Gert-Jan; Vatin, Vincent; Viikari, Jorma; Visvikis-Siest, Sophie; Vitart, Veronique; Vogel, Carla I. G.; Voight, Benjamin F.; Waite, Lindsay L.; Wallaschofski, Henri; Walters, G. Bragi; Widen, Elisabeth; Wiegand, Susanna; Wild, Sarah H.; Willemsen, Gonneke; Witte, Daniel R.; Witteman, Jacqueline C.; Xu, Jianfeng; Zhang, Qunyuan; Zgaga, Lina; Ziegler, Andreas; Zitting, Paavo; Beilby, John P.; Farooqi, I. Sadaf; Hebebrand, Johannes; Huikuri, Heikki V.; James, Alan L.; Kähönen, Mika; Levinson, Douglas F.; Macciardi, Fabio; Nieminen, Markku S.; Ohlsson, Claes; Palmer, Lyle J.; Ridker, Paul M.; Stumvoll, Michael; Beckmann, Jacques S.; Boeing, Heiner; Boerwinkle, Eric; Boomsma, Dorret I.; Caulfield, Mark J.; Chanock, Stephen J.; Collins, Francis S.; Cupples, L. Adrienne; Smith, George Davey; Erdmann, Jeanette; Froguel, Philippe; Grönberg, Henrik; Gyllensten, Ulf; Hall, Per; Hansen, Torben; Harris, Tamara B.; Hattersley, Andrew T.; Hayes, Richard B.; Heinrich, Joachim; Hu, Frank B.; Hveem, Kristian; Illig, Thomas; Jarvelin, Marjo-Riitta; Kaprio, Jaakko; Karpe, Fredrik; Khaw, Kay-Tee; Kiemeney, Lambertus A.; Krude, Heiko; Laakso, Markku; Lawlor, Debbie A.; Metspalu, Andres; Munroe, Patricia B.; Ouwehand, Willem H.; Pedersen, Oluf; Penninx, Brenda W.; Peters, Annette; Pramstaller, Peter P.; Quertermous, Thomas; Reinehr, Thomas; Rissanen, Aila; Rudan, Igor; Samani, Nilesh J.; Schwarz, Peter E.H.; Shuldiner, Alan R.; Spector, Timothy D.; Tuomilehto, Jaakko; Uda, Manuela; Uitterlinden, André; Valle, Timo T.; Wabitsch, Martin; Waeber, Gérard; Wareham, Nicholas J.; Watkins, Hugh; Wilson, James F.; Wright, Alan F.; Zillikens, M. Carola; Chatterjee, Nilanjan; McCarroll, Steven A.; Purcell, Shaun; Schadt, Eric E.; Visscher, Peter M.; Assimes, Themistocles L.; Borecki, Ingrid B.; Deloukas, Panos; Fox, Caroline S.; Groop, Leif C.; Haritunians, Talin; Hunter, David J.; Kaplan, Robert C.; Mohlke, Karen L.; O’Connell, Jeffrey R.; Peltonen, Leena; Schlessinger, David; Strachan, David P.; van Duijn, Cornelia M.; Wichmann, H.-Erich; Frayling, Timothy M.; Thorsteinsdottir, Unnur; Abecasis, Gonçalo R.; Barroso, Inês; Boehnke, Michael; Stefansson, Kari; North, Kari E.; McCarthy, Mark I.; Hirschhorn, Joel N.; Ingelsson, Erik; Loos, Ruth J.F.

    2010-01-01

    Obesity is globally prevalent and highly heritable, but the underlying genetic factors remain largely elusive. To identify genetic loci for obesity-susceptibility, we examined associations between body mass index (BMI) and ~2.8 million SNPs in up to 123,865 individuals, with targeted follow-up of 42 SNPs in up to 125,931 additional individuals. We confirmed 14 known obesity-susceptibility loci and identified 18 new loci associated with BMI (P<5×10−8), one of which includes a copy number variant near GPRC5B. Some loci (MC4R, POMC, SH2B1, BDNF) map near key hypothalamic regulators of energy balance, and one is near GIPR, an incretin receptor. Furthermore, genes in other newly-associated loci may provide novel insights into human body weight regulation. PMID:20935630

  8. Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index.

    Science.gov (United States)

    Speliotes, Elizabeth K; Willer, Cristen J; Berndt, Sonja I; Monda, Keri L; Thorleifsson, Gudmar; Jackson, Anne U; Lango Allen, Hana; Lindgren, Cecilia M; Luan, Jian'an; Mägi, Reedik; Randall, Joshua C; Vedantam, Sailaja; Winkler, Thomas W; Qi, Lu; Workalemahu, Tsegaselassie; Heid, Iris M; Steinthorsdottir, Valgerdur; Stringham, Heather M; Weedon, Michael N; Wheeler, Eleanor; Wood, Andrew R; Ferreira, Teresa; Weyant, Robert J; Segrè, Ayellet V; Estrada, Karol; Liang, Liming; Nemesh, James; Park, Ju-Hyun; Gustafsson, Stefan; Kilpeläinen, Tuomas O; Yang, Jian; Bouatia-Naji, Nabila; Esko, Tõnu; Feitosa, Mary F; Kutalik, Zoltán; Mangino, Massimo; Raychaudhuri, Soumya; Scherag, Andre; Smith, Albert Vernon; Welch, Ryan; Zhao, Jing Hua; Aben, Katja K; Absher, Devin M; Amin, Najaf; Dixon, Anna L; Fisher, Eva; Glazer, Nicole L; Goddard, Michael E; Heard-Costa, Nancy L; Hoesel, Volker; Hottenga, Jouke-Jan; Johansson, Asa; Johnson, Toby; Ketkar, Shamika; Lamina, Claudia; Li, Shengxu; Moffatt, Miriam F; Myers, Richard H; Narisu, Narisu; Perry, John R B; Peters, Marjolein J; Preuss, Michael; Ripatti, Samuli; Rivadeneira, Fernando; Sandholt, Camilla; Scott, Laura J; Timpson, Nicholas J; Tyrer, Jonathan P; van Wingerden, Sophie; Watanabe, Richard M; White, Charles C; Wiklund, Fredrik; Barlassina, Christina; Chasman, Daniel I; Cooper, Matthew N; Jansson, John-Olov; Lawrence, Robert W; Pellikka, Niina; Prokopenko, Inga; Shi, Jianxin; Thiering, Elisabeth; Alavere, Helene; Alibrandi, Maria T S; Almgren, Peter; Arnold, Alice M; Aspelund, Thor; Atwood, Larry D; Balkau, Beverley; Balmforth, Anthony J; Bennett, Amanda J; Ben-Shlomo, Yoav; Bergman, Richard N; Bergmann, Sven; Biebermann, Heike; Blakemore, Alexandra I F; Boes, Tanja; Bonnycastle, Lori L; Bornstein, Stefan R; Brown, Morris J; Buchanan, Thomas A; Busonero, Fabio; Campbell, Harry; Cappuccio, Francesco P; Cavalcanti-Proença, Christine; Chen, Yii-Der Ida; Chen, Chih-Mei; Chines, Peter S; Clarke, Robert; Coin, Lachlan; Connell, John; Day, Ian N M; den Heijer, Martin; Duan, Jubao; Ebrahim, Shah; Elliott, Paul; Elosua, Roberto; Eiriksdottir, Gudny; Erdos, Michael R; Eriksson, Johan G; Facheris, Maurizio F; Felix, Stephan B; Fischer-Posovszky, Pamela; Folsom, Aaron R; Friedrich, Nele; Freimer, Nelson B; Fu, Mao; Gaget, Stefan; Gejman, Pablo V; Geus, Eco J C; Gieger, Christian; Gjesing, Anette P; Goel, Anuj; Goyette, Philippe; Grallert, Harald; Grässler, Jürgen; Greenawalt, Danielle M; Groves, Christopher J; Gudnason, Vilmundur; Guiducci, Candace; Hartikainen, Anna-Liisa; Hassanali, Neelam; Hall, Alistair S; Havulinna, Aki S; Hayward, Caroline; Heath, Andrew C; Hengstenberg, Christian; Hicks, Andrew A; Hinney, Anke; Hofman, Albert; Homuth, Georg; Hui, Jennie; Igl, Wilmar; Iribarren, Carlos; Isomaa, Bo; Jacobs, Kevin B; Jarick, Ivonne; Jewell, Elizabeth; John, Ulrich; Jørgensen, Torben; Jousilahti, Pekka; Jula, Antti; Kaakinen, Marika; Kajantie, Eero; Kaplan, Lee M; Kathiresan, Sekar; Kettunen, Johannes; Kinnunen, Leena; Knowles, Joshua W; Kolcic, Ivana; König, Inke R; Koskinen, Seppo; Kovacs, Peter; Kuusisto, Johanna; Kraft, Peter; Kvaløy, Kirsti; Laitinen, Jaana; Lantieri, Olivier; Lanzani, Chiara; Launer, Lenore J; Lecoeur, Cecile; Lehtimäki, Terho; Lettre, Guillaume; Liu, Jianjun; Lokki, Marja-Liisa; Lorentzon, Mattias; Luben, Robert N; Ludwig, Barbara; Manunta, Paolo; Marek, Diana; Marre, Michel; Martin, Nicholas G; McArdle, Wendy L; McCarthy, Anne; McKnight, Barbara; Meitinger, Thomas; Melander, Olle; Meyre, David; Midthjell, Kristian; Montgomery, Grant W; Morken, Mario A; Morris, Andrew P; Mulic, Rosanda; Ngwa, Julius S; Nelis, Mari; Neville, Matt J; Nyholt, Dale R; O'Donnell, Christopher J; O'Rahilly, Stephen; Ong, Ken K; Oostra, Ben; Paré, Guillaume; Parker, Alex N; Perola, Markus; Pichler, Irene; Pietiläinen, Kirsi H; Platou, Carl G P; Polasek, Ozren; Pouta, Anneli; Rafelt, Suzanne; Raitakari, Olli; Rayner, Nigel W; Ridderstråle, Martin; Rief, Winfried; Ruokonen, Aimo; Robertson, Neil R; Rzehak, Peter; Salomaa, Veikko; Sanders, Alan R; Sandhu, Manjinder S; Sanna, Serena; Saramies, Jouko; Savolainen, Markku J; Scherag, Susann; Schipf, Sabine; Schreiber, Stefan; Schunkert, Heribert; Silander, Kaisa; Sinisalo, Juha; Siscovick, David S; Smit, Jan H; Soranzo, Nicole; Sovio, Ulla; Stephens, Jonathan; Surakka, Ida; Swift, Amy J; Tammesoo, Mari-Liis; Tardif, Jean-Claude; Teder-Laving, Maris; Teslovich, Tanya M; Thompson, John R; Thomson, Brian; Tönjes, Anke; Tuomi, Tiinamaija; van Meurs, Joyce B J; van Ommen, Gert-Jan; Vatin, Vincent; Viikari, Jorma; Visvikis-Siest, Sophie

    2010-11-01

    Obesity is globally prevalent and highly heritable, but its underlying genetic factors remain largely elusive. To identify genetic loci for obesity susceptibility, we examined associations between body mass index and ∼ 2.8 million SNPs in up to 123,865 individuals with targeted follow up of 42 SNPs in up to 125,931 additional individuals. We confirmed 14 known obesity susceptibility loci and identified 18 new loci associated with body mass index (P < 5 × 10⁻⁸), one of which includes a copy number variant near GPRC5B. Some loci (at MC4R, POMC, SH2B1 and BDNF) map near key hypothalamic regulators of energy balance, and one of these loci is near GIPR, an incretin receptor. Furthermore, genes in other newly associated loci may provide new insights into human body weight regulation.

  9. Genome-wide association analyses identify 18 new loci associated with serum urate concentrations

    NARCIS (Netherlands)

    Köttgen, Anna; Albrecht, Eva; Teumer, Alexander; Vitart, Veronique; Krumsiek, Jan; Hundertmark, Claudia; Pistis, Giorgio; Ruggiero, Daniela; O'Seaghdha, Conall M; Haller, Toomas; Yang, Qiong; Tanaka, Toshiko; Johnson, Andrew D; Kutalik, Zoltán; Smith, Albert V; Shi, Julia; Struchalin, Maksim; Middelberg, Rita P S; Brown, Morris J; Gaffo, Angelo L; Pirastu, Nicola; Li, Guo; Hayward, Caroline; Zemunik, Tatijana; Huffman, Jennifer; Yengo, Loic; Zhao, Jing Hua; Demirkan, Ayse; Feitosa, Mary F; Liu, Xuan; Malerba, Giovanni; Lopez, Lorna M; van der Harst, Pim; Li, Xinzhong; Kleber, Marcus E; Hicks, Andrew A; Nolte, Ilja M; Johansson, Asa; Murgia, Federico; Wild, Sarah H; Bakker, Stephan J L; Peden, John F; Dehghan, Abbas; Steri, Maristella; Tenesa, Albert; Lagou, Vasiliki; Salo, Perttu; Mangino, Massimo; Rose, Lynda M; Lehtimäki, Terho; Woodward, Owen M; Okada, Yukinori; Tin, Adrienne; Müller, Christian; Oldmeadow, Christopher; Putku, Margus; Czamara, Darina; Kraft, Peter; Frogheri, Laura; Thun, Gian Andri; Grotevendt, Anne; Gislason, Gauti Kjartan; Harris, Tamara B; Launer, Lenore J; McArdle, Patrick; Shuldiner, Alan R; Boerwinkle, Eric; Coresh, Josef; Schmidt, Helena; Schallert, Michael; Martin, Nicholas G; Montgomery, Grant W; Kubo, Michiaki; Nakamura, Yusuke; Tanaka, Toshihiro; Munroe, Patricia B; Samani, Nilesh J; Jacobs, David R; Liu, Kiang; D'Adamo, Pio; Ulivi, Sheila; Rotter, Jerome I; Psaty, Bruce M; Vollenweider, Peter; Waeber, Gerard; Campbell, Susan; Devuyst, Olivier; Navarro, Pau; Kolcic, Ivana; Hastie, Nicholas; Balkau, Beverley; Froguel, Philippe; Esko, Tõnu; Salumets, Andres; Khaw, Kay Tee; Langenberg, Claudia; Wareham, Nicholas J; Isaacs, Aaron; Kraja, Aldi; Zhang, Qunyuan; Wild, Philipp S; Scott, Rodney J; Holliday, Elizabeth G; Org, Elin; Viigimaa, Margus; Bandinelli, Stefania; Metter, Jeffrey E; Lupo, Antonio; Trabetti, Elisabetta; Sorice, Rossella; Döring, Angela; Lattka, Eva; Strauch, Konstantin; Theis, Fabian; Waldenberger, Melanie; Wichmann, H-Erich; Davies, Gail; Gow, Alan J; Bruinenberg, Marcel; Stolk, Ronald P; Kooner, Jaspal S; Zhang, Weihua; Winkelmann, Bernhard R; Boehm, Bernhard O; Lucae, Susanne; Penninx, Brenda W; Smit, Johannes H; Curhan, Gary; Mudgal, Poorva; Plenge, Robert M; Portas, Laura; Persico, Ivana; Kirin, Mirna; Wilson, James F; Mateo Leach, Irene; van Gilst, Wiek H; Goel, Anuj; Ongen, Halit; Hofman, Albert; Rivadeneira, Fernando; Uitterlinden, Andre G; Imboden, Medea; von Eckardstein, Arnold; Cucca, Francesco; Nagaraja, Ramaiah; Piras, Maria Grazia; Nauck, Matthias; Schurmann, Claudia; Budde, Kathrin; Ernst, Florian; Farrington, Susan M; Theodoratou, Evropi; Prokopenko, Inga; Stumvoll, Michael; Jula, Antti; Perola, Markus; Salomaa, Veikko; Shin, So-Youn; Spector, Tim D; Sala, Cinzia; Ridker, Paul M; Kähönen, Mika; Viikari, Jorma; Hengstenberg, Christian; Nelson, Christopher P; Meschia, James F; Nalls, Michael A; Sharma, Pankaj; Singleton, Andrew B; Kamatani, Naoyuki; Zeller, Tanja; Burnier, Michel; Attia, John; Laan, Maris; Klopp, Norman; Hillege, Hans L; Kloiber, Stefan; Choi, Hyon; Pirastu, Mario; Tore, Silvia; Probst-Hensch, Nicole M; Völzke, Henry; Gudnason, Vilmundur; Parsa, Afshin; Schmidt, Reinhold; Whitfield, John B; Fornage, Myriam; Gasparini, Paolo; Siscovick, David S; Polašek, Ozren; Campbell, Harry; Rudan, Igor; Bouatia-Naji, Nabila; Metspalu, Andres; Loos, Ruth J F; van Duijn, Cornelia M; Borecki, Ingrid B; Ferrucci, Luigi; Gambaro, Giovanni; Deary, Ian J; Wolffenbuttel, Bruce H R; Chambers, John C; März, Winfried; Pramstaller, Peter P; Snieder, Harold; Gyllensten, Ulf; Wright, Alan F; Navis, Gerjan; Watkins, Hugh; Witteman, Jacqueline C M; Sanna, Serena; Schipf, Sabine; Dunlop, Malcolm G; Tönjes, Anke; Ripatti, Samuli; Soranzo, Nicole; Toniolo, Daniela; Chasman, Daniel I; Raitakari, Olli; Kao, W H Linda; Ciullo, Marina; Fox, Caroline S; Caulfield, Mark; Bochud, Murielle; Gieger, Christian

    2013-01-01

    Elevated serum urate concentrations can cause gout, a prevalent and painful inflammatory arthritis. By combining data from >140,000 individuals of European ancestry within the Global Urate Genetics Consortium (GUGC), we identified and replicated 28 genome-wide significant loci in association with se

  10. Meta-analyses of genome-wide association studies identify multiple loci associated with pulmonary function

    NARCIS (Netherlands)

    D.B. Hancock (Dana); M. Eijgelsheim (Mark); J.B. Wilk (Jemma); S.A. Gharib (Sina); L.R. Loehr (Laura); K. Marciante (Kristin); N. Franceschini (Nora); Y.M.T.A. van Durme; T.H. Chen; R.G. Barr (Graham); M.B. Schabath (Matthew); D.J. Couper (David); G.G. Brusselle (Guy); B.M. Psaty (Bruce); P. Tikka-Kleemola (Päivi); J.I. Rotter (Jerome); A.G. Uitterlinden (André); A. Hofman (Albert); N.M. Punjabi (Naresh); F. Rivadeneira Ramirez (Fernando); A.C. Morrison (Alanna); P.L. Enright (Paul); K.E. North (Kari); S.R. Heckbert (Susan); T. Lumley (Thomas); B.H.Ch. Stricker (Bruno); G.T. O'Connor (George); S.J. London (Stephanie)

    2010-01-01

    textabstractSpirometric measures of lung function are heritable traits that reflect respiratory health and predict morbidity and mortality. We meta-analyzed genome-wide association studies for two clinically important lung-function measures: forced expiratory volume in the first second (FEV1) and it

  11. Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index

    DEFF Research Database (Denmark)

    Speliotes, Elizabeth K; Willer, Cristen J; Berndt, Sonja I;

    2010-01-01

    Obesity is globally prevalent and highly heritable, but its underlying genetic factors remain largely elusive. To identify genetic loci for obesity susceptibility, we examined associations between body mass index and ~ 2.8 million SNPs in up to 123,865 individuals with targeted follow up of 42 SN...

  12. Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index

    NARCIS (Netherlands)

    Speliotes, Elizabeth K.; Willer, Cristen J.; Berndt, Sonja I.; Monda, Keri L.; Thorleifsson, Gudmar; Jackson, Anne U.; Allen, Hana Lango; Lindgren, Cecilia M.; Luan, Jian'an; Maegi, Reedik; Randall, Joshua C.; Vedantam, Sailaja; Winkler, Thomas W.; Qi, Lu; Workalemahu, Tsegaselassie; Heid, Iris M.; Steinthorsdottir, Valgerdur; Stringham, Heather M.; Weedon, Michael N.; Wheeler, Eleanor; Wood, Andrew R.; Ferreira, Teresa; Weyant, Robert J.; Segre, Ayellet V.; Estrada, Karol; Liang, Liming; Nemesh, James; Park, Ju-Hyun; Gustafsson, Stefan; Kilpelaenen, Tuomas O.; Yang, Jian; Bouatia-Naji, Nabila; Esko, Tonu; Feitosa, Mary F.; Kutalik, Zoltan; Mangino, Massimo; Raychaudhuri, Soumya; Scherag, Andre; Smith, Albert Vernon; Welch, Ryan; Zhao, Jing Hua; Aben, Katja K.; Absher, Devin M.; Amin, Najaf; Dixon, Anna L.; Fisher, Eva; Glazer, Nicole L.; Goddard, Michael E.; Heard-Costa, Nancy L.; Hoesel, Volker; Hottenga, Jouke-Jan; Johansson, Asa; Johnson, Toby; Ketkar, Shamika; Lamina, Claudia; Li, Shengxu; Moffatt, Miriam F.; Myers, Richard H.; Narisu, Narisu; Perry, John R. B.; Peters, Marjolein J.; Preuss, Michael; Ripatti, Samuli; Rivadeneira, Fernando; Sandholt, Camilla; Scott, Laura J.; Timpson, Nicholas J.; Tyrer, Jonathan P.; van Wingerden, Sophie; Watanabe, Richard M.; White, Charles C.; Wiklund, Fredrik; Barlassina, Christina; Chasman, Daniel I.; Cooper, Matthew N.; Jansson, John-Olov; Lawrence, Robert W.; Pellikka, Niina; Prokopenko, Inga; Shi, Jianxin; Thiering, Elisabeth; Alavere, Helene; Alibrandi, Maria T. S.; Almgren, Peter; Arnold, Alice M.; Aspelund, Thor; Atwood, Larry D.; Balkau, Beverley; Balmforth, Anthony J.; Bennett, Amanda J.; Ben-Shlomo, Yoav; Bergman, Richard N.; Bergmann, Sven; Biebermann, Heike; Blakemore, Alexandra I. F.; Boes, Tanja; Bonnycastle, Lori L.; Bornstein, Stefan R.; Brown, Morris J.; Buchanan, Thomas A.; Busonero, Fabio; Campbell, Harry; Cappuccio, Francesco P.; Cavalcanti-Proenca, Christine; Chen, Yii-Der Ida; Chen, Chih-Mei; Chines, Peter S.; Clarke, Robert; Coin, Lachlan; Connell, John; Day, Ian N. M.; den Heijer, Martin; Duan, Jubao; Ebrahim, Shah; Elliott, Paul; Elosua, Roberto; Eiriksdottir, Gudny; Erdos, Michael R.; Eriksson, Johan G.; Facheris, Maurizio F.; Felix, Stephan B.; Fischer-Posovszky, Pamela; Folsom, Aaron R.; Friedrich, Nele; Freimer, Nelson B.; Fu, Mao; Gaget, Stefan; Gejman, Pablo V.; Geus, Eco J. C.; Gieger, Christian; Gjesing, Anette P.; Goel, Anuj; Goyette, Philippe; Grallert, Harald; Graessler, Juergen; Greenawalt, Danielle M.; Groves, Christopher J.; Gudnason, Vilmundur; Guiducci, Candace; Hartikainen, Anna-Liisa; Hassanali, Neelam; Hall, Alistair S.; Havulinna, Aki S.; Hayward, Caroline; Heath, Andrew C.; Hengstenberg, Christian; Hicks, Andrew A.; Hinney, Anke; Hofman, Albert; Homuth, Georg; Hui, Jennie; Igl, Wilmar; Iribarren, Carlos; Isomaa, Bo; Jacobs, Kevin B.; Jarick, Ivonne; Jewell, Elizabeth; John, Ulrich; Jorgensen, Torben; Jousilahti, Pekka; Jula, Antti; Kaakinen, Marika; Kajantie, Eero; Kaplan, Lee M.; Kathiresan, Sekar; Kettunen, Johannes; Kinnunen, Leena; Knowles, Joshua W.; Kolcic, Ivana; Koenig, Inke R.; Koskinen, Seppo; Kovacs, Peter; Kuusisto, Johanna; Kraft, Peter; Kvaloy, Kirsti; Laitinen, Jaana; Lantieri, Olivier; Lanzani, Chiara; Launer, Lenore J.; Lecoeur, Cecile; Lehtimaeki, Terho; Lettre, Guillaume; Liu, Jianjun; Lokki, Marja-Liisa; Lorentzon, Mattias; Luben, Robert N.; Ludwig, Barbara; Manunta, Paolo; Marek, Diana; Marre, Michel; Martin, Nicholas G.; McArdle, Wendy L.; McCarthy, Anne; McKnight, Barbara; Meitinger, Thomas; Melander, Olle; Meyre, David; Midthjell, Kristian; Montgomery, Grant W.; Morken, Mario A.; Morris, Andrew P.; Mulic, Rosanda; Ngwa, Julius S.; Nelis, Mari; Neville, Matt J.; Nyholt, Dale R.; O'Donnell, Christopher J.; O'Rahilly, Stephen; Ong, Ken K.; Oostra, Ben; Pare, Guillaume; Parker, Alex N.; Perola, Markus; Pichler, Irene; Pietilaeinen, Kirsi H.; Platou, Carl G. P.; Polasek, Ozren; Pouta, Anneli; Rafelt, Suzanne; Raitakari, Olli; Rayner, Nigel W.; Ridderstrale, Martin; Rief, Winfried; Ruokonen, Aimo; Robertson, Neil R.; Rzehak, Peter; Salomaa, Veikko; Sanders, Alan R.; Sandhu, Manjinder S.; Sanna, Serena; Saramies, Jouko; Savolainen, Markku J.; Scherag, Susann; Schipf, Sabine; Schreiber, Stefan; Schunkert, Heribert; Silander, Kaisa; Sinisalo, Juha; Siscovick, David S.; Smit, Jan H.; Soranzo, Nicole; Sovio, Ulla; Stephens, Jonathan; Surakka, Ida; Swift, Amy J.; Tammesoo, Mari-Liis; Tardif, Jean-Claude; Teder-Laving, Maris; Teslovich, Tanya M.; Thompson, John R.; Thomson, Brian; Toenjes, Anke; Tuomi, Tiinamaija; van Meurs, Joyce B. J.; van Ommen, Gert-Jan; Vatin, Vincent; Viikari, Jorma; Visvikis-Siest, Sophie; Vitart, Veronique; Vogel, Carla I. G.; Voight, Benjamin F.; Waite, Lindsay L.; Wallaschofski, Henri; Walters, G. Bragi; Widen, Elisabeth; Wiegand, Susanna; Wild, Sarah H.; Willemsen, Gonneke; Witte, Daniel R.; Witteman, Jacqueline C.; Xu, Jianfeng; Zhang, Qunyuan; Zgaga, Lina; Ziegler, Andreas; Zitting, Paavo; Beilby, John P.; Farooqi, I. Sadaf; Hebebrand, Johannes; Huikuri, Heikki V.; James, Alan L.; Kaehoenen, Mika; Levinson, Douglas F.; Macciardi, Fabio; Nieminen, Markku S.; Ohlsson, Claes; Palmer, Lyle J.; Ridker, Paul M.; Stumvoll, Michael; Beckmann, Jacques S.; Boeing, Heiner; Boerwinkle, Eric; Boomsma, Dorret I.; Caulfield, Mark J.; Chanock, Stephen J.; Collins, Francis S.; Cupples, L. Adrienne; Smith, George Davey; Erdmann, Jeanette; Froguel, Philippe; Greonberg, Henrik; Gyllensten, Ulf; Hall, Per; Hansen, Torben; Harris, Tamara B.; Hattersley, Andrew T.; Hayes, Richard B.; Heinrich, Joachim; Hu, Frank B.; Hveem, Kristian; Illig, Thomas; Jarvelin, Marjo-Riitta; Kaprio, Jaakko; Karpe, Fredrik; Khaw, Kay-Tee; Kiemeney, Lambertus A.; Krude, Heiko; Laakso, Markku; Lawlor, Debbie A.; Metspalu, Andres; Munroe, Patricia B.; Ouwehand, Willem H.; Pedersen, Oluf; Penninx, Brenda W.; Peters, Annette; Pramstaller, Peter P.; Quertermous, Thomas; Reinehr, Thomas; Rissanen, Aila; Rudan, Igor; Samani, Nilesh J.; Schwarz, Peter E. H.; Shuldiner, Alan R.; Spector, Timothy D.; Tuomilehto, Jaakko; Uda, Manuela; Uitterlinden, Andre; Valle, Timo T.; Wabitsch, Martin; Waeber, Gerard; Wareham, Nicholas J.; Watkins, Hugh; Wilson, James F.; Wright, Alan F.; Zillikens, M. Carola; Chatterjee, Nilanjan; McCarroll, Steven A.; Purcell, Shaun; Schadt, Eric E.; Visscher, Peter M.; Assimes, Themistocles L.; Borecki, Ingrid B.; Deloukas, Panos; Fox, Caroline S.; Groop, Leif C.; Haritunians, Talin; Hunter, David J.; Kaplan, Robert C.; Mohlke, Karen L.; O'Connell, Jeffrey R.; Peltonen, Leena; Schlessinger, David; Strachan, David P.; van Duijn, Cornelia M.; Wichmann, H-Erich; Frayling, Timothy M.; Thorsteinsdottir, Unnur; Abecasis, Goncalo R.; Barroso, Ines; Boehnke, Michael; Stefansson, Kari; North, Kari E.; McCarthy, Mark I.; Hirschhorn, Joel N.; Ingelsson, Erik; Loos, Ruth J. F.

    2010-01-01

    Obesity is globally prevalent and highly heritable, but its underlying genetic factors remain largely elusive. To identify genetic loci for obesity susceptibility, we examined associations between body mass index and similar to 2.8 million SNPs in up to 123,865 individuals with targeted follow up of

  13. Associations Between Funding Source and Results of Cost Effectiveness Analyses of Drugs Used in Breast Cancer

    OpenAIRE

    Lane, Jordan D.

    2015-01-01

    Background: Cost effectiveness studies are increasingly included in the regulatory decisions of many countries and in formulary decisions in the United States. Pharmaceutical company sponsorship of economic analyses of oncology drugs previously has been associated with reduced likelihood of reporting unfavorable results. Demonstrating persistence of this relationship may help enable better interpretation of study results and development of strategies to address potential bias. Methods: ...

  14. Genome-wide association analyses identify variants in developmental genes associated with hypospadias

    DEFF Research Database (Denmark)

    Geller, Frank; Feenstra, Bjarke; Carstensen, Lisbeth;

    2014-01-01

    Hypospadias is a common congenital condition in boys in which the urethra opens on the underside of the penis. We performed a genome-wide association study on 1,006 surgery-confirmed hypospadias cases and 5,486 controls from Denmark. After replication genotyping of an additional 1,972 cases and 1......, IRX5, IRX6 and EYA1). Subsequent pathway analysis with GRAIL and DEPICT provided additional insight into possible genetic mechanisms causing hypospadias....

  15. Abundance analysis, spectral variability, and search for the presence of a magnetic field in the typical PGa star HD 19400

    Science.gov (United States)

    Hubrig, S.; Castelli, F.; González, J. F.; Carroll, T. A.; Ilyin, I.; Schöller, M.; Drake, N. A.; Korhonen, H.; Briquet, M.

    2014-08-01

    The aim of this study is to carry out an abundance determination, to search for spectral variability and for the presence of a weak magnetic field in the typical PGa star HD 19400. High-resolution, high signal-to-noise High Accuracy Radial-velocity Planet Searcher (HARPS) spectropolarimetric observations of HD 19400 were obtained at three different epochs in 2011 and 2013. For the first time, we present abundances of various elements determined using an ATLAS12 model, including the abundances of a number of elements not analysed by previous studies, such as Ne I, Ga II, and Xe II. Several lines of As II are also present in the spectra of HD 19400. To study the variability, we compared the behaviour of the line profiles of various elements. We report on the first detection of anomalous shapes of line profiles belonging to Mn and Hg, and the variability of the line profiles belonging to the elements Hg, P, Mn, Fe, and Ga. We suggest that the variability of the line profiles of these elements is caused by their non-uniform surface distribution, similar to the presence of chemical spots detected in HgMn stars. The search for the presence of a magnetic field was carried out using the moment technique and the Singular Value Decomposition (SVD) method. Our measurements of the magnetic field with the moment technique using 22 Mn II lines indicate the potential existence of a weak variable longitudinal magnetic field on the first epoch. The SVD method applied to the Mn II lines indicates = -76 ± 25 G on the first epoch, and at the same epoch the SVD analysis of the observations using the Fe II lines shows = -91 ± 35 G. The calculated false alarm probability values, 0.008 and 0.003, respectively, are above the value 10-3, indicating no detection.

  16. Heterologous expression of leader-less pga gene in Pichia pastoris: intracellular production of prokaryotic enzyme

    Directory of Open Access Journals (Sweden)

    Kyslík Pavel

    2010-02-01

    Full Text Available Abstract Background Penicillin G acylase of Escherichia coli (PGAEc is a commercially valuable enzyme for which efficient bacterial expression systems have been developed. The enzyme is used as a catalyst for the hydrolytic production of β-lactam nuclei or for the synthesis of semi-synthetic penicillins such as ampicillin, amoxicillin and cephalexin. To become a mature, periplasmic enzyme, the inactive prepropeptide of PGA has to undergo complex processing that begins in the cytoplasm (autocatalytic cleavage, continues at crossing the cytoplasmic membrane (signal sequence removing, and it is completed in the periplasm. Since there are reports on impressive cytosolic expression of bacterial proteins in Pichia, we have cloned the leader-less gene encoding PGAEc in this host and studied yeast production capacity and enzyme authenticity. Results Leader-less pga gene encoding PGAEcunder the control of AOX1 promoter was cloned in Pichia pastoris X-33. The intracellular overproduction of heterologous PGAEc(hPGAEc was evaluated in a stirred 10 litre bioreactor in high-cell density, fed batch cultures using different profiles of transient phases. Under optimal conditions, the average volumetric activity of 25900 U l-1 was reached. The hPGAEc was purified, characterized and compared with the wild-type PGAEc. The α-subunit of the hPGAEc formed in the cytosol was processed aberrantly resulting in two forms with C- terminuses extended to the spacer peptide. The enzyme exhibited modified traits: the activity of the purified enzyme was reduced to 49%, the ratios of hydrolytic activities with cephalexin, phenylacetamide or 6-nitro-3-phenylacetylamidobenzoic acid (NIPAB to penicillin G increased and the enzyme showed a better synthesis/hydrolysis ratio for the synthesis of cephalexin. Conclusions Presented results provide useful data regarding fermentation strategy, intracellular biosynthetic potential, and consequences of the heterologous expression of PGAEc

  17. Associations between Homocysteine, Folic Acid, Vitamin B12 and Alzheimer's Disease: Insights from Meta-Analyses.

    Science.gov (United States)

    Shen, Liang; Ji, Hong-Fang

    2015-01-01

    The associations between homocysteine (Hcy), folic acid, and vitamin B12 and Alzheimer's disease (AD) have gained much interest, while remaining controversial. We aim to perform meta-analyses to evaluate comprehensively: i) Hcy, folic acid, and vitamin B12 levels in AD patients in comparison with controls; and ii) the association between Hcy, folic acid, and vitamin B12 levels and risk of AD. A literature search was performed using Medline and Scopus databases. A total of 68 studies were identified and included in the meta-analyses. Stata 12.0 statistical software was used to perform the meta-analyses. First, AD patients may have higher level of Hcy, and lower levels of folate and vitamin B12 in plasma than controls. Further age-subgroup analysis showed no age effect for Hcy levels in plasma between AD patients and matched controls, while the differences in folate and vitamin B12 levels further enlarged with increased age. Second, data suggests that high Hcy and low folate levels may correlate with increased risk of AD occurrence. The comprehensive meta-analyses not only confirmed higher Hcy, lower folic acid, and vitamin B12 levels in AD patients than controls, but also implicated that high Hcy and low folic acid levels may be risk factors of AD. Further studies are encouraged to elucidate mechanisms linking these conditions. PMID:25854931

  18. Comparison of Genome-Wide Association Methods in Analyses of Admixed Populations with Complex Familial Relationships

    DEFF Research Database (Denmark)

    Kadri, Naveen; Guldbrandtsen, Bernt; Sørensen, Peter;

    2014-01-01

    ) levels. We also compared type-I error rates among models in analyses of publicly available human and dog datasets. The models corrected for none, one, or both structure levels. Correction for K was performed with linear mixed models incorporating familial relationships estimated from pedigrees or genetic......Population structure is known to cause false-positive detection in association studies. We compared the power, precision, and type-I error rates of various association models in analyses of a simulated dataset with structure at the population (admixture from two populations; P) and family (K...... corrected for P. In contrast, correction for P alone in linear models was insufficient. The power and precision of linear mixed models with and without correction for P were similar. Furthermore, power, precision, and type-I error rate were comparable in linear mixed models incorporating pedigree...

  19. Meta-Analyses of Genome-Wide Association Data Hold New Promise for Addiction Genetics.

    Science.gov (United States)

    Agrawal, Arpana; Edenberg, Howard J; Gelernter, Joel

    2016-09-01

    Meta-analyses of genome-wide association study data have begun to lead to promising new discoveries for behavioral and psychiatrically relevant phenotypes (e.g., schizophrenia, educational attainment). We outline how this methodology can similarly lead to novel discoveries in genomic studies of substance use disorders, and discuss challenges that will need to be overcome to accomplish this goal. We illustrate our approach with the work of the newly established Substance Use Disorders workgroup of the Psychiatric Genomics Consortium. PMID:27588522

  20. Summary of the GK15 ground‐motion prediction equation for horizontal PGA and 5% damped PSA from shallow crustal continental earthquakes

    Science.gov (United States)

    Graizer, Vladimir;; Kalkan, Erol

    2016-01-01

    We present a revised ground‐motion prediction equation (GMPE) for computing medians and standard deviations of peak ground acceleration (PGA) and 5% damped pseudospectral acceleration (PSA) response ordinates of the horizontal component of randomly oriented ground motions to be used for seismic‐hazard analyses and engineering applications. This GMPE is derived from the expanded Next Generation Attenuation (NGA)‐West 1 database (see Data and Resources; Chiou et al., 2008). The revised model includes an anelastic attenuation term as a function of quality factor (Q0) to capture regional differences in far‐source (beyond 150 km) attenuation, and a new frequency‐dependent sedimentary‐basin scaling term as a function of depth to the 1.5  km/s shear‐wave velocity isosurface to improve ground‐motion predictions at sites located on deep sedimentary basins. The new Graizer–Kalkan 2015 (GK15) model, developed to be simple, is applicable for the western United States and other similar shallow crustal continental regions in active tectonic environments for earthquakes with moment magnitudes (M) 5.0–8.0, distances 0–250 km, average shear‐wave velocities in the upper 30 m (VS30) 200–1300  m/s, and spectral periods (T) 0.01–5 s. Our aleatory variability model captures interevent (between‐event) variability, which decreases with magnitude and increases with distance. The mixed‐effect residuals analysis reveals that the GK15 has no trend with respect to the independent predictor parameters. Compared to our 2007–2009 GMPE, the PGA values are very similar, whereas spectral ordinates predicted are larger at T<0.2  s and they are smaller at longer periods.

  1. Association and interaction analyses of eight genes under asthma linkage peaks

    DEFF Research Database (Denmark)

    Ferreira, M.A.R.; Zhao, Z.Z.; Thomsen, S.F.;

    2009-01-01

    Background: Linkage studies have implicated the 2q33, 9p21, 11q13 and 20q13 regions in the regulation of allergic disease. The aim of this study was to test genetic variants in candidate genes from these regions for association with specific asthma traits. Methods: Ninety-five single nucleotide...... polymorphisms (SNP) located in eight genes (CD28, CTLA4, ICOS, ADAM23, ADAMTSL1, MS4A2, CDH26 and HRH3) were genotyped in > 5000 individuals from Australian (n = 1162), Dutch (n = 99) and Danish (n = 303) families. Traits tested included doctor-diagnosed asthma, atopy, airway obstruction, total serum...... immunoglobulin (Ig) E levels and eosinophilia. Association was tested using both multivariate and univariate methods, with gene-wide thresholds for significance determined through simulation. Gene-by-gene and gene-by-environment analyses were also performed. Results: There was no overall evidence for association...

  2. Association analyses of the INSIG2 polymorphism in the obesity and cholesterol levels of Korean populations

    Directory of Open Access Journals (Sweden)

    Shin Hyoung

    2009-09-01

    Full Text Available Abstract Background While INSIG2 has been reported to be associated with BMI in many populations, conflicting results have prevented consensus over its role. In analyses of mice and cell cultures the gene has been found to be involved in the regulation of cholesterol synthesis; however, no relationship has been found with cholesterol metabolism in human epidemiological research. Therefore, this study attempts to assess the effect of rs7566605 near INSIG2 on both obesity- and cholesterol-related traits in Koreans. Methods The rs7566605 polymorphism was genotyped with 2,364 Koreans, and associations with obesity- and cholesterol-related traits were analyzed statistically via an ANOVA or T-test. Results Replication of an association with BMI, WHR, fat mass, fat percent, and abdominal fat area failed, and the C allele of rs7566605 was not associated significantly with total cholesterol, HDL cholesterol, or triglyceride. However, it was found in a meta-analysis of a dominant model that the C allele of rs7566605 appeared to affect the level of the total cholesterol, especially in female subjects. Conclusion We failed to show associations of rs7566605 with cholesterol- and obesity-related phenotypes, although we newly suggest the possible involvement of INSIG2 with the plasma level of the total cholesterol in women.

  3. Haplotype association analyses in resources of mixed structure using Monte Carlo testing

    Directory of Open Access Journals (Sweden)

    Thomas Alun

    2010-12-01

    Full Text Available Abstract Background Genomewide association studies have resulted in a great many genomic regions that are likely to harbor disease genes. Thorough interrogation of these specific regions is the logical next step, including regional haplotype studies to identify risk haplotypes upon which the underlying critical variants lie. Pedigrees ascertained for disease can be powerful for genetic analysis due to the cases being enriched for genetic disease. Here we present a Monte Carlo based method to perform haplotype association analysis. Our method, hapMC, allows for the analysis of full-length and sub-haplotypes, including imputation of missing data, in resources of nuclear families, general pedigrees, case-control data or mixtures thereof. Both traditional association statistics and transmission/disequilibrium statistics can be performed. The method includes a phasing algorithm that can be used in large pedigrees and optional use of pseudocontrols. Results Our new phasing algorithm substantially outperformed the standard expectation-maximization algorithm that is ignorant of pedigree structure, and hence is preferable for resources that include pedigree structure. Through simulation we show that our Monte Carlo procedure maintains the correct type 1 error rates for all resource types. Power comparisons suggest that transmission-disequilibrium statistics are superior for performing association in resources of only nuclear families. For mixed structure resources, however, the newly implemented pseudocontrol approach appears to be the best choice. Results also indicated the value of large high-risk pedigrees for association analysis, which, in the simulations considered, were comparable in power to case-control resources of the same sample size. Conclusions We propose hapMC as a valuable new tool to perform haplotype association analyses, particularly for resources of mixed structure. The availability of meta-association and haplotype-mining modules in

  4. Comprehensive genomic analyses associate UGT8 variants with musical ability in a Mongolian population

    Science.gov (United States)

    Park, Hansoo; Lee, Seungbok; Kim, Hyun-Jin; Ju, Young Seok; Shin, Jong-Yeon; Hong, Dongwan; von Grotthuss, Marcin; Lee, Dong-Sung; Park, Changho; Kim, Jennifer Hayeon; Kim, Boram; Yoo, Yun Joo; Cho, Sung-Il; Sung, Joohon; Lee, Charles; Kim, Jong-Il; Seo, Jeong-Sun

    2012-01-01

    Background Musical abilities such as recognising music and singing performance serve as means for communication and are instruments in sexual selection. Specific regions of the brain have been found to be activated by musical stimuli, but these have rarely been extended to the discovery of genes and molecules associated with musical ability. Methods A total of 1008 individuals from 73 families were enrolled and a pitch-production accuracy test was applied to determine musical ability. To identify genetic loci and variants that contribute to musical ability, we conducted family-based linkage and association analyses, and incorporated the results with data from exome sequencing and array comparative genomic hybridisation analyses. Results We found significant evidence of linkage at 4q23 with the nearest marker D4S2986 (LOD=3.1), whose supporting interval overlaps a previous study in Finnish families, and identified an intergenic single nucleotide polymorphism (SNP) (rs1251078, p=8.4×10−17) near UGT8, a gene highly expressed in the central nervous system and known to act in brain organisation. In addition, a non-synonymous SNP in UGT8 was revealed to be highly associated with musical ability (rs4148254, p=8.0×10−17), and a 6.2 kb copy number loss near UGT8 showed a plausible association with musical ability (p=2.9×10−6). Conclusions This study provides new insight into the genetics of musical ability, exemplifying a methodology to assign functional significance to synonymous and non-coding alleles by integrating multiple experimental methods. PMID:23118445

  5. Strong motion PGA prediction for southwestern China from small earthquake records

    Science.gov (United States)

    Tao, Zhengru; Tao, Xiaxin; Cui, Anping

    2016-05-01

    For regions without enough strong ground motion records, a seismology-based method is adopted to predict motion PGA (peak ground acceleration) values on rock sites with parameters from small earthquake data, recorded by regional broadband digital monitoring networks. Sichuan and Yunnan regions in southwestern China are selected for this case study. Five regional parameters of source spectrum and attenuation are acquired from a joint inversion by the micro-genetic algorithm. PGAs are predicted for earthquakes with moment magnitude (Mw) 5.0, 6.0, and 7.0 respectively and a series of distances. The result is compared with limited regional strong motion data in the corresponding interval Mw ± 0.5. Most of the results ideally pass through the data clusters, except the case of Mw7.0 in the Sichuan region, which shows an obvious slow attenuation due to a lack of observed data from larger earthquakes (Mw ≥ 7.0). For further application, the parameters are adopted in strong motion synthesis at two near-fault stations during the great Wenchuan Earthquake M8.0 in 2008.

  6. A fuzzy logic algorithm for identification of the harvesting threshold during PGA production by Bacillus megaterium

    Directory of Open Access Journals (Sweden)

    E. R. Nucci

    2005-12-01

    Full Text Available Penicillin G acylase (PGA is an important enzyme used as biocatalyst in the production of semisynthetic beta-lactam antibiotics. Many microorganisms produce this enzyme and recombinant Escherichia coli has been preferred use for industrial applications. Bacillus megaterium is one of the microorganisms that excretes this enzyme into the medium. As a consequence, separation and purification steps are simplified. On-line measurement of enzyme activity during cultivation using in-situ sensors is a difficult task in the industrial environment due to the lack of robust and inexpensive instrumentation. This work presents the results of a fuzzy logic algorithm used to determine the moment of maximum enzyme concentration during Bacillus megaterium cultivations in an aerated and stirred, automated lab-scale bioreactor. The fuzzy algorithm was written in Fortran, compiled as a dynamic link library and implemented on a platform developed in MS-Visual Basic. Data were exchanged in real time between the platform and the supervisory system, which was coupled to the bioreactor. It was possible to determine the moment at which maximum enzyme activity was reached in several bioreactor assays. At this point, the end of the process was indicated to the operator. The results illustrate the importance of using reliable computational intelligence-based algorithms in biochemical reactions.

  7. Quality control and conduct of genome-wide association meta-analyses.

    Science.gov (United States)

    Winkler, Thomas W; Day, Felix R; Croteau-Chonka, Damien C; Wood, Andrew R; Locke, Adam E; Mägi, Reedik; Ferreira, Teresa; Fall, Tove; Graff, Mariaelisa; Justice, Anne E; Luan, Jian'an; Gustafsson, Stefan; Randall, Joshua C; Vedantam, Sailaja; Workalemahu, Tsegaselassie; Kilpeläinen, Tuomas O; Scherag, André; Esko, Tonu; Kutalik, Zoltán; Heid, Iris M; Loos, Ruth J F

    2014-05-01

    Rigorous organization and quality control (QC) are necessary to facilitate successful genome-wide association meta-analyses (GWAMAs) of statistics aggregated across multiple genome-wide association studies. This protocol provides guidelines for (i) organizational aspects of GWAMAs, and for (ii) QC at the study file level, the meta-level across studies and the meta-analysis output level. Real-world examples highlight issues experienced and solutions developed by the GIANT Consortium that has conducted meta-analyses including data from 125 studies comprising more than 330,000 individuals. We provide a general protocol for conducting GWAMAs and carrying out QC to minimize errors and to guarantee maximum use of the data. We also include details for the use of a powerful and flexible software package called EasyQC. Precise timings will be greatly influenced by consortium size. For consortia of comparable size to the GIANT Consortium, this protocol takes a minimum of about 10 months to complete. PMID:24762786

  8. Systematic meta-analyses of gene-specific genetic association studies in prostate cancer

    Science.gov (United States)

    Hao, Qiang; Wei, Dong; Zhang, Yaoguang; Chen, Xin; Yang, Fan; Yang, Ze; Zhu, Xiaoquan; Wang, Jianye

    2016-01-01

    In the past twenty-five years, over 700 case-control association studies on the risk of prostate cancer have been published worldwide, but their results were largely inconsistent. To facilitate following and explaining these findings, we performed a systematic meta-analysis using allelic contrasts for gene-specific SNVs from at least three independent population-based case-control studies, which were published in the field of prostate cancer between August 1, 1990 and August 1, 2015. Across 66 meta-analyses, a total of 20 genetic variants involving 584,100 subjects in 19 different genes (KLK3, IGFBP3, ESR1, SOD2, CAT, CYP1B1, VDR, RFX6, HNF1B, SRD5A2, FGFR4, LEP, HOXB13, FAS, FOXP4, SLC22A3, LMTK2, EHBP1 and MSMB) exhibited significant association with prostate cancer. The average summary OR was 1.33 (ranging from: 1.016–3.788) for risk alleles and 0.838 (ranging from: 0.757–0.896) for protective alleles. Of these positive variants, FOXP4 rs1983891, LMTK2 rs6465657 and RFX6 rs339331 had not been previously meta-analyzed. Further analyses with sufficient power design and investigations of the potential biological roles of these genetic variants in prostate cancer should be conducted. PMID:26967244

  9. Genotype/phenotype analyses for 53 Crohn's disease associated genetic polymorphisms.

    Directory of Open Access Journals (Sweden)

    Camille Jung

    Full Text Available BACKGROUND & AIMS: Recent studies reported a role for more than 70 genes or loci in the susceptibility to Crohn's disease (CD. However, the impact of these associations in clinical practice remains to be defined. The aim of the study was to analyse the relationship between genotypes and phenotypes for the main 53 CD-associated polymorphisms. METHOD: A cohort of 798 CD patients with a median follow up of 7 years was recruited by tertiary adult and paediatric gastroenterological centres. A detailed phenotypic description of the disease was recorded, including clinical presentation, response to treatments and complications. The participants were genotyped for 53 CD-associated variants previously reported in the literature and correlations with clinical sub-phenotypes were searched for. A replication cohort consisting of 722 CD patients was used to further explore the putative associations. RESULTS: The NOD2 rare variants were associated with an earlier age at diagnosis (p = 0.0001 and an ileal involvement (OR = 2.25[1.49-3.41] and 2.77 [1.71-4.50] for rs2066844 and rs2066847, respectively. Colonic lesions were positively associated with the risk alleles of IL23R rs11209026 (OR = 2.25 [1.13-4.51] and 6q21 rs7746082 (OR = 1.60 [1.10-2.34] and negatively associated with the risk alleles of IRGM rs13361189 (OR = 0.29 [0.11-0.74] and DEFB1 rs11362 (OR = 0.50 [0.30-0.80]. The ATG16L1 and IRGM variants were associated with a non-inflammatory behaviour (OR = 1.75 [1.22-2.53] and OR = 1.50 [1.04-2.16] respectively. However, these associations lost significance after multiple testing corrections. The protective effect of the IRGM risk allele on colonic lesions was the only association replicated in the second cohort (p = 0.03. CONCLUSIONS: It is not recommended to genotype the studied polymorphisms in routine practice.

  10. Meta-Analyses of the Associations of Respiratory Health Effectswith Dampness and Mold in Homes

    Energy Technology Data Exchange (ETDEWEB)

    Fisk, William J.; Lei-Gomez, Quanhong; Mendell, Mark J.

    2006-01-01

    The Institute of Medicine (IOM) of the National Academy of Sciences recently completed a critical review of the scientific literature pertaining to the association of indoor dampness and mold contamination with adverse health effects. In this paper, we report the results of quantitative meta-analysis of the studies reviewed in the IOM report. We developed point estimates and confidence intervals (CIs) to summarize the association of several respiratory and asthma-related health outcomes with the presence of dampness and mold in homes. The odds ratios and confidence intervals from the original studies were transformed to the log scale and random effect models were applied to the log odds ratios and their variance. Models were constructed both accounting for the correlation between multiple results within the studies analyzed and ignoring such potential correlation. Central estimates of ORs for the health outcomes ranged from 1.32 to 2.10, with most central estimates between 1.3 and 1.8. Confidence intervals (95%) excluded unity except in two of 28 instances, and in most cases the lower bound of the CI exceeded 1.2. In general, the two meta-analysis methods produced similar estimates for ORs and CIs. Based on the results of the meta-analyses, building dampness and mold are associated with approximately 30% to 80% increases in a variety of respiratory and asthma-related health outcomes. The results of these meta-analyses reinforce the IOM's recommendation that actions be taken to prevent and reduce building dampness problems.

  11. Chemical analyses of wasp-associated streptomyces bacteria reveal a prolific potential for natural products discovery.

    Directory of Open Access Journals (Sweden)

    Michael Poulsen

    Full Text Available Identifying new sources for small molecule discovery is necessary to help mitigate the continuous emergence of antibiotic-resistance in pathogenic microbes. Recent studies indicate that one potentially rich source of novel natural products is Actinobacterial symbionts associated with social and solitary Hymenoptera. Here we test this possibility by examining two species of solitary mud dauber wasps, Sceliphron caementarium and Chalybion californicum. We performed enrichment isolations from 33 wasps and obtained more than 200 isolates of Streptomyces Actinobacteria. Chemical analyses of 15 of these isolates identified 11 distinct and structurally diverse secondary metabolites, including a novel polyunsaturated and polyoxygenated macrocyclic lactam, which we name sceliphrolactam. By pairing the 15 Streptomyces strains against a collection of fungi and bacteria, we document their antifungal and antibacterial activity. The prevalence and anti-microbial properties of Actinobacteria associated with these two solitary wasp species suggest the potential role of these Streptomyces as antibiotic-producing symbionts, potentially helping defend their wasp hosts from pathogenic microbes. Finding phylogenetically diverse and chemically prolific Actinobacteria from solitary wasps suggests that insect-associated Actinobacteria can provide a valuable source of novel natural products of pharmaceutical interest.

  12. A surgical case of secondary pneumothorax cured by intra-fistula filling method using fibrin glue and PGA felt

    International Nuclear Information System (INIS)

    The patient was a 73-year-old male who had been treated for lung cancer located in the left lower lobe (S9-10), evaluated as cT2aN2M0. He received chemoradiotherapy, which involved combination chemotherapy with carboplatin and paclitaxel, and radiotherapy of 50.0 Gy for the primary lesion. Diffuse radiation pneumonitis and fibrosis were seen in his left lower lobe, 3 months after the therapy. In addition, left pneumothorax was recognized a month after that. Because conservative therapy using chemical pleurodesis for this secondary pneumothorax ended in failure, surgical intervention was performed. A pulmonary fistula of about 1 cm in diameter was present in part of the primary lung cancer. Due to lung parenchyma hardening and its fragile visceral pleura, we performed the intra-fistula filling method using fibrin glue and PGA felt, which was followed by direct suturing and reinforcement of the visceral pleura. This reinforcement outside visceral pleura was achieved using a fascia patch and the combination of PGA felt and frictional spraying of fibrin glue. This intra-fistula filling method using fibrin glue and PGA felt can be effective when a standard surgical procedure for pneumothorax using an autosuturing device cannot be performed. (author)

  13. Genome sequencing elucidates Sardinian genetic architecture and augments association analyses for lipid and blood inflammatory markers.

    Science.gov (United States)

    Sidore, Carlo; Busonero, Fabio; Maschio, Andrea; Porcu, Eleonora; Naitza, Silvia; Zoledziewska, Magdalena; Mulas, Antonella; Pistis, Giorgio; Steri, Maristella; Danjou, Fabrice; Kwong, Alan; Ortega Del Vecchyo, Vicente Diego; Chiang, Charleston W K; Bragg-Gresham, Jennifer; Pitzalis, Maristella; Nagaraja, Ramaiah; Tarrier, Brendan; Brennan, Christine; Uzzau, Sergio; Fuchsberger, Christian; Atzeni, Rossano; Reinier, Frederic; Berutti, Riccardo; Huang, Jie; Timpson, Nicholas J; Toniolo, Daniela; Gasparini, Paolo; Malerba, Giovanni; Dedoussis, George; Zeggini, Eleftheria; Soranzo, Nicole; Jones, Chris; Lyons, Robert; Angius, Andrea; Kang, Hyun M; Novembre, John; Sanna, Serena; Schlessinger, David; Cucca, Francesco; Abecasis, Gonçalo R

    2015-11-01

    We report ∼17.6 million genetic variants from whole-genome sequencing of 2,120 Sardinians; 22% are absent from previous sequencing-based compilations and are enriched for predicted functional consequences. Furthermore, ∼76,000 variants common in our sample (frequency >5%) are rare elsewhere (<0.5% in the 1000 Genomes Project). We assessed the impact of these variants on circulating lipid levels and five inflammatory biomarkers. We observe 14 signals, including 2 major new loci, for lipid levels and 19 signals, including 2 new loci, for inflammatory markers. The new associations would have been missed in analyses based on 1000 Genomes Project data, underlining the advantages of large-scale sequencing in this founder population. PMID:26366554

  14. Explorations in genome-wide association studies and network analyses with dairy cattle fertility traits.

    Science.gov (United States)

    Parker Gaddis, K L; Null, D J; Cole, J B

    2016-08-01

    The objective of this study was to identify single nucleotide polymorphisms and gene networks associated with 3 fertility traits in dairy cattle-daughter pregnancy rate, heifer conception rate, and cow conception rate-using different approaches. Deregressed predicted transmitting abilities were available for approximately 24,000 Holstein bulls and 36,000 Holstein cows sampled from the National Dairy Database with high-density genotypes. Of those, 1,732 bulls and 375 cows had been genotyped with the Illumina BovineHD Genotyping BeadChip (Illumina Inc., San Diego, CA). The remaining animals were genotyped with various chips of lower density that were imputed to high density. Univariate and trivariate genome-wide association studies (GWAS) with both medium- (60,671 markers) and high-density (312,614 markers) panels were performed for daughter pregnancy rate, heifer conception rate, and cow conception rate using GEMMA (version 0.94; http://www.xzlab.org/software.html). Analyses were conducted using bulls only, cows only, and a sample of both bulls and cows. The partial correlation and information theory algorithm was used to develop gene interaction networks. The most significant markers were further investigated to identify putatively associated genes. Little overlap in associated genes could be found between GWAS using different reference populations of bulls only, cows only, and combined bulls and cows. The partial correlation and information theory algorithm was able to identify several genes that were not identified by ordinary GWAS. The results obtained herein will aid in further dissecting the complex biology underlying fertility traits in dairy cattle, while also providing insight into the nuances of GWAS. PMID:27209127

  15. Genome-wide meta-analyses identify multiple loci associated with smoking behavior.

    LENUS (Irish Health Repository)

    2010-05-01

    Consistent but indirect evidence has implicated genetic factors in smoking behavior. We report meta-analyses of several smoking phenotypes within cohorts of the Tobacco and Genetics Consortium (n = 74,053). We also partnered with the European Network of Genetic and Genomic Epidemiology (ENGAGE) and Oxford-GlaxoSmithKline (Ox-GSK) consortia to follow up the 15 most significant regions (n > 140,000). We identified three loci associated with number of cigarettes smoked per day. The strongest association was a synonymous 15q25 SNP in the nicotinic receptor gene CHRNA3 (rs1051730[A], beta = 1.03, standard error (s.e.) = 0.053, P = 2.8 x 10(-73)). Two 10q25 SNPs (rs1329650[G], beta = 0.367, s.e. = 0.059, P = 5.7 x 10(-10); and rs1028936[A], beta = 0.446, s.e. = 0.074, P = 1.3 x 10(-9)) and one 9q13 SNP in EGLN2 (rs3733829[G], beta = 0.333, s.e. = 0.058, P = 1.0 x 10(-8)) also exceeded genome-wide significance for cigarettes per day. For smoking initiation, eight SNPs exceeded genome-wide significance, with the strongest association at a nonsynonymous SNP in BDNF on chromosome 11 (rs6265[C], odds ratio (OR) = 1.06, 95% confidence interval (Cl) 1.04-1.08, P = 1.8 x 10(-8)). One SNP located near DBH on chromosome 9 (rs3025343[G], OR = 1.12, 95% Cl 1.08-1.18, P = 3.6 x 10(-8)) was significantly associated with smoking cessation.

  16. Identifying Virulence-Associated Genes Using Transcriptomic and Proteomic Association Analyses of the Plant Parasitic Nematode Bursaphelenchus mucronatus

    Science.gov (United States)

    Zhou, Lifeng; Chen, Fengmao; Pan, Hongyang; Ye, Jianren; Dong, Xuejiao; Li, Chunyan; Lin, Fengling

    2016-01-01

    Bursaphelenchus mucronatus (B. mucronatus) isolates that originate from different regions may vary in their virulence, but their virulence-associated genes and proteins are poorly understood. Thus, we conducted an integrated study coupling RNA-Seq and isobaric tags for relative and absolute quantitation (iTRAQ) to analyse transcriptomic and proteomic data of highly and weakly virulent B. mucronatus isolates during the pathogenic processes. Approximately 40,000 annotated unigenes and 5000 proteins were gained from the isolates. When we matched all of the proteins with their detected transcripts, a low correlation coefficient of r = 0.138 was found, indicating probable post-transcriptional gene regulation involved in the pathogenic processes. A functional analysis showed that five differentially expressed proteins which were all highly expressed in the highly virulent isolate were involved in the pathogenic processes of nematodes. Peroxiredoxin, fatty acid- and retinol-binding protein, and glutathione peroxidase relate to resistance against plant defence responses, while β-1,4-endoglucanase and expansin are associated with the breakdown of plant cell walls. Thus, the pathogenesis of B. mucronatus depends on its successful survival in host plants. Our work adds to the understanding of B. mucronatus’ pathogenesis, and will aid in controlling B. mucronatus and other pinewood nematode species complexes in the future. PMID:27618012

  17. Identifying Virulence-Associated Genes Using Transcriptomic and Proteomic Association Analyses of the Plant Parasitic Nematode Bursaphelenchus mucronatus.

    Science.gov (United States)

    Zhou, Lifeng; Chen, Fengmao; Pan, Hongyang; Ye, Jianren; Dong, Xuejiao; Li, Chunyan; Lin, Fengling

    2016-01-01

    Bursaphelenchus mucronatus (B. mucronatus) isolates that originate from different regions may vary in their virulence, but their virulence-associated genes and proteins are poorly understood. Thus, we conducted an integrated study coupling RNA-Seq and isobaric tags for relative and absolute quantitation (iTRAQ) to analyse transcriptomic and proteomic data of highly and weakly virulent B. mucronatus isolates during the pathogenic processes. Approximately 40,000 annotated unigenes and 5000 proteins were gained from the isolates. When we matched all of the proteins with their detected transcripts, a low correlation coefficient of r = 0.138 was found, indicating probable post-transcriptional gene regulation involved in the pathogenic processes. A functional analysis showed that five differentially expressed proteins which were all highly expressed in the highly virulent isolate were involved in the pathogenic processes of nematodes. Peroxiredoxin, fatty acid- and retinol-binding protein, and glutathione peroxidase relate to resistance against plant defence responses, while β-1,4-endoglucanase and expansin are associated with the breakdown of plant cell walls. Thus, the pathogenesis of B. mucronatus depends on its successful survival in host plants. Our work adds to the understanding of B. mucronatus' pathogenesis, and will aid in controlling B. mucronatus and other pinewood nematode species complexes in the future. PMID:27618012

  18. Phenotypic Association Analyses With Copy Number Variation in Recurrent Depressive Disorder

    Science.gov (United States)

    Rucker, James J.H.; Tansey, Katherine E.; Rivera, Margarita; Pinto, Dalila; Cohen-Woods, Sarah; Uher, Rudolf; Aitchison, Katherine J.; Craddock, Nick; Owen, Michael J.; Jones, Lisa; Jones, Ian; Korszun, Ania; Barnes, Michael R.; Preisig, Martin; Mors, Ole; Maier, Wolfgang; Rice, John; Rietschel, Marcella; Holsboer, Florian; Farmer, Anne E.; Craig, Ian W.; Scherer, Stephen W.; McGuffin, Peter; Breen, Gerome

    2016-01-01

    Background Defining the molecular genomic basis of the likelihood of developing depressive disorder is a considerable challenge. We previously associated rare, exonic deletion copy number variants (CNV) with recurrent depressive disorder (RDD). Sex chromosome abnormalities also have been observed to co-occur with RDD. Methods In this reanalysis of our RDD dataset (N = 3106 cases; 459 screened control samples and 2699 population control samples), we further investigated the role of larger CNVs and chromosomal abnormalities in RDD and performed association analyses with clinical data derived from this dataset. Results We found an enrichment of Turner’s syndrome among cases of depression compared with the frequency observed in a large population sample (N = 34,910) of live-born infants collected in Denmark (two-sided p = .023, odds ratio = 7.76 [95% confidence interval = 1.79–33.6]), a case of diploid/triploid mosaicism, and several cases of uniparental isodisomy. In contrast to our previous analysis, large deletion CNVs were no more frequent in cases than control samples, although deletion CNVs in cases contained more genes than control samples (two-sided p = .0002). Conclusions After statistical correction for multiple comparisons, our data do not support a substantial role for CNVs in RDD, although (as has been observed in similar samples) occasional cases may harbor large variants with etiological significance. Genetic pleiotropy and sample heterogeneity suggest that very large sample sizes are required to study conclusively the role of genetic variation in mood disorders. PMID:25861698

  19. Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes.

    Science.gov (United States)

    Li, Xu; Wang, Wenqi; Wang, Jiadong; Malovannaya, Anna; Xi, Yuanxin; Li, Wei; Guerra, Rudy; Hawke, David H; Qin, Jun; Chen, Junjie

    2015-01-21

    The current knowledge on how transcription factors (TFs), the ultimate targets and executors of cellular signalling pathways, are regulated by protein-protein interactions remains limited. Here, we performed proteomics analyses of soluble and chromatin-associated complexes of 56 TFs, including the targets of many signalling pathways involved in development and cancer, and 37 members of the Forkhead box (FOX) TF family. Using tandem affinity purification followed by mass spectrometry (TAP/MS), we performed 214 purifications and identified 2,156 high-confident protein-protein interactions. We found that most TFs form very distinct protein complexes on and off chromatin. Using this data set, we categorized the transcription-related or unrelated regulators for general or specific TFs. Our study offers a valuable resource of protein-protein interaction networks for a large number of TFs and underscores the general principle that TFs form distinct location-specific protein complexes that are associated with the different regulation and diverse functions of these TFs.

  20. iNKT Cells Are Responsible for the Apoptotic Reduction of Basophils That Mediate Th2 Immune Responses Elicited by Papain in Mice Following γPGA Stimulation.

    Science.gov (United States)

    Park, Hyun Jung; Lee, Sung Won; Park, Se-Ho; Hong, Seokmann

    2016-01-01

    Recent studies have demonstrated that Bacillus subtilis-derived poly-gamma glutamic acid (γPGA) treatment suppresses the development of allergic diseases such as atopic dermatitis (AD). Although basophils, an innate immune cell, are known to play critical roles in allergic immune responses and repeated long-term administration of γPGA results in decreased splenic basophils in an AD murine model, the underlying mechanisms by which γPGA regulates basophil frequency remain unclear. To investigate how γPGA modulates basophils, we employed basophil-mediated Th2 induction in vivo model elicited by the allergen papain protease. Repeated injection of γPGA reduced the abundance of basophils and their production of IL4 in mice, consistent with our previous study using NC/Nga AD model mice. The depletion of basophils by a single injection of γPGA was dependent on the TLR4/DC/IL12 axis. CD1d-dependent Vα14 TCR invariant natural killer T (iNKT) cells are known to regulate a variety of immune responses, such as allergy. Because iNKT cell activation is highly sensitive to IL12 produced by DCs, we evaluated whether the effect of γPGA on basophils is mediated by iNKT cell activation. We found that in vivo γPGA treatment did not induce the reduction of basophils in iNKT cell-deficient CD1d KO mice, suggesting the critical role of iNKT cells in γPGA-mediated basophil depletion at the early time points. Furthermore, increased apoptotic basophil reduction triggered by iNKT cells upon γPGA stimulation was mainly attributed to Th1 cytokines such as IFNγ and TNFα, consequently resulting in inhibition of papain-induced Th2 differentiation via diminishing basophil-derived IL4. Taken together, our results clearly demonstrate that γPGA-induced iNKT cell polarization toward the Th1 phenotype induces apoptotic basophil depletion, leading to the suppression of Th2 immune responses. Thus, elucidation of the crosstalk between innate immune cells will contribute to the design and

  1. Complete nucleotide sequence of pGA45, a 140,698-bp incFIIY plasmid encoding blaIMI-3-mediated carbapenem resistance, from river sediment

    Directory of Open Access Journals (Sweden)

    Bingjun eDang

    2016-02-01

    Full Text Available Plasmid pGA45 was isolated from the sediment of Haihe River using E. coli CV601 (gfp-tagged as recipients and indigenous bacteria from sediment as donors. This plasmid confers reduced susceptibility to imipenem which belongs to carbapenem group. Plasmid pGA45 was fully sequenced on an Illumina HiSeq 2000 sequencing system. The complete sequence of plasmid pGA45 was 140,698 bp in length with an average G+C content of 52.03%. Sequence analysis shows that pGA45 belongs to incFIIY group and harbors a backbone region shares high homology and gene synteny to several other incF plasmids including pNDM1_EC14653, pYDC644, pNDM-Ec1GN574, pRJF866, pKOX_NDM1 and pP10164-NDM. In addition to the backbone region, plasmid pGA45 harbors two notable features including one blaIMI-3-containing region and one type VI secretion system region. The blaIMI-3-containing region is responsible for bacteria carbapenem resistance and the type VI secretion system region is probably involved in bacteria virulence, respectively. Plasmid pGA45 represents the first complete nucleotide sequence of the blaIMI-harboring plasmid from environment sample and the sequencing of this plasmid provided insight into the architecture used for the dissemination of blaIMI carbapenemase genes.

  2. Complete Nucleotide Sequence of pGA45, a 140,698-bp IncFIIY Plasmid Encoding bla IMI-3-Mediated Carbapenem Resistance, from River Sediment.

    Science.gov (United States)

    Dang, Bingjun; Mao, Daqing; Luo, Yi

    2016-01-01

    Plasmid pGA45 was isolated from the sediments of Haihe River using Escherichia coli CV601 (gfp-tagged) as recipients and indigenous bacteria from sediment as donors. This plasmid confers reduced susceptibility to imipenem which belongs to carbapenem group. Plasmid pGA45 was fully sequenced on an Illumina HiSeq 2000 sequencing system. The complete sequence of plasmid pGA45 was 140,698 bp in length with an average G + C content of 52.03%. Sequence analysis shows that pGA45 belongs to IncFIIY group and harbors a backbone region which shares high homology and gene synteny to several other IncF plasmids including pNDM1_EC14653, pYDC644, pNDM-Ec1GN574, pRJF866, pKOX_NDM1, and pP10164-NDM. In addition to the backbone region, plasmid pGA45 harbors two notable features including one bla IMI-3-containing region and one type VI secretion system region. The bla IMI-3-containing region is responsible for bacteria carbapenem resistance and the type VI secretion system region is probably involved in bacteria virulence, respectively. Plasmid pGA45 represents the first complete nucleotide sequence of the bla IMI-harboring plasmid from environment sample and the sequencing of this plasmid provided insight into the architecture used for the dissemination of bla IMI carbapenemase genes. PMID:26941718

  3. Complete Nucleotide Sequence of pGA45, a 140,698-bp IncFIIY Plasmid Encoding bla IMI-3-Mediated Carbapenem Resistance, from River Sediment.

    Science.gov (United States)

    Dang, Bingjun; Mao, Daqing; Luo, Yi

    2016-01-01

    Plasmid pGA45 was isolated from the sediments of Haihe River using Escherichia coli CV601 (gfp-tagged) as recipients and indigenous bacteria from sediment as donors. This plasmid confers reduced susceptibility to imipenem which belongs to carbapenem group. Plasmid pGA45 was fully sequenced on an Illumina HiSeq 2000 sequencing system. The complete sequence of plasmid pGA45 was 140,698 bp in length with an average G + C content of 52.03%. Sequence analysis shows that pGA45 belongs to IncFIIY group and harbors a backbone region which shares high homology and gene synteny to several other IncF plasmids including pNDM1_EC14653, pYDC644, pNDM-Ec1GN574, pRJF866, pKOX_NDM1, and pP10164-NDM. In addition to the backbone region, plasmid pGA45 harbors two notable features including one bla IMI-3-containing region and one type VI secretion system region. The bla IMI-3-containing region is responsible for bacteria carbapenem resistance and the type VI secretion system region is probably involved in bacteria virulence, respectively. Plasmid pGA45 represents the first complete nucleotide sequence of the bla IMI-harboring plasmid from environment sample and the sequencing of this plasmid provided insight into the architecture used for the dissemination of bla IMI carbapenemase genes.

  4. Proteomic and phosphoproteomic analyses of chromatin-associated proteins from Arabidopsis thaliana

    KAUST Repository

    Bigeard, Jean

    2014-07-10

    The nucleus is the organelle where basically all DNA-related processes take place in eukaryotes, such as replication, transcription, and splicing as well as epigenetic regulation. The identification and description of the nuclear proteins is one of the requisites toward a comprehensive understanding of the biological functions accomplished in the nucleus. Many of the regulatory mechanisms of protein functions rely on their PTMs among which phosphorylation is probably one of the most important properties affecting enzymatic activity, interaction with other molecules, localization, or stability. So far, the nuclear and subnuclear proteome and phosphoproteome of the model plant Arabidopsis thaliana have been the subject of very few studies. In this work, we developed a purification protocol of Arabidopsis chromatin-associated proteins and performed proteomic and phosphoproteomic analyses identifying a total of 879 proteins of which 198 were phosphoproteins that were mainly involved in chromatin remodeling, transcriptional regulation, and RNA processing. From 230 precisely localized phosphorylation sites (phosphosites), 52 correspond to hitherto unidentified sites. This protocol and data thereby obtained should be a valuable resource for many domains of plant research.

  5. Multivariate analyses with end-member mixing to characterize groundwater flow: Wind Cave and associated aquifers

    Science.gov (United States)

    Long, Andrew J.; Valder, Joshua F.

    2011-01-01

    Principal component analysis (PCA) applied to hydrochemical data has been used with end-member mixing to characterize groundwater flow to a limited extent, but aspects of this approach are unresolved. Previous similar approaches typically have assumed that the extreme-value samples identified by PCA represent end members. The method presented herein is different from previous work in that (1) end members were not assumed to have been sampled but rather were estimated and constrained by prior knowledge; (2) end-member mixing was quantified in relation to hydrogeologic domains, which focuses model results on major hydrologic processes; (3) a method to select an appropriate number of end members using a series of cluster analyses is presented; and (4) conservative tracers were weighted preferentially in model calibration, which distributed model errors of optimized values, or residuals, more appropriately than would otherwise be the case. The latter item also provides an estimate of the relative influence of geochemical evolution along flow paths in comparison to mixing. This method was applied to groundwater in Wind Cave and the associated karst aquifer in the Black Hills of South Dakota, USA. The end-member mixing model was used to test a hypothesis that five different end-member waters are mixed in the groundwater system comprising five hydrogeologic domains. The model estimated that Wind Cave received most of its groundwater inflow from local surface recharge with an additional 33% from an upgradient aquifer. Artesian springs in the vicinity of Wind Cave primarily received water from regional groundwater flow.

  6. Plasmid pGA1 from Corynebacterium glutamicum codes for a gene product that positively influences plasmid copy number.

    OpenAIRE

    Nesvera, J; Pátek, M; Hochmannová, J; Abrhámová, Z; Becvárová, V; Jelínkova, M; Vohradský, J

    1997-01-01

    The complete nucleotide sequence (4,826 bp) of the cryptic plasmid pGA1 from Corynebacterium glutamicum was determined. DNA sequence analysis revealed four putative coding regions (open reading frame A [ORFA], ORFA2, ORFB, and ORFC). ORFC was identified as a rep gene coding for an initiator of plasmid replication (Rep) according to the high level of homology of its deduced amino acid sequence with the Rep proteins of plasmids pSR1 (from C. glutamicum) and pNG2 (from Corynebacterium diphtheria...

  7. ToF-SIMS evaluation of calcium-containing silica/γ-PGA hybrid systems for bone regeneration

    Science.gov (United States)

    Wang, Daming; Nakamura, Jin; Poologasundarampillai, Gowsihan; Kasuga, Toshihiro; Jones, Julian R.; McPhail, David S.

    2014-08-01

    Inorganic/organic hybrids have great potential for the production of bioactive scaffolds which have tailored mechanical properties and degradation rates suitable for tissue engineering. For bone regeneration, calcium incorporation into hybrids at low temperatures is important due to its ability to stimulate new bone formation. As a consequence, understanding the homogeneity of the critical inorganic and organic components will be the key to the development of such hybrids. The aim of this interdisciplinary study was to use time-of-flight secondary ion mass spectrometry (ToF-SIMS) to determine the homogeneity of these critical components. We evaluated various sol-gel silica/γ-polyglutamic acid (γ-PGA) hybrid systems produced using different routes to introduce the calcium, thereby tailoring and optimizing hybrid syntheses and processing routes. Dimethyl carbonate (DMC) was used to improve the inorganic/organic coupling and its influence on the homogeneity of the hybrid structures was also examined. The results revealed that the calcium salt form of γ-PGA was promising for calcium incorporation since homogeneous products could be obtained. The ToF-SIMS data also indicated that the reaction time of hybrid synthesis and the timing of the addition of DMC can affect the homogeneity of hybrids.

  8. Surface Analyses and Immune Reactivities of Major Cell Wall-Associated Proteins of Group A Streptococcus

    OpenAIRE

    Cole, Jason N; Ramirez, Ruben D.; Currie, Bart J.; Cordwell, Stuart J.; Djordjevic, Steven P.; Mark J Walker

    2005-01-01

    A proteomic analysis was undertaken to identify cell wall-associated proteins of Streptococcus pyogenes. Seventy-four distinct cell wall-associated proteins were identified, 66 of which were novel. Thirty-three proteins were immunoreactive with pooled S. pyogenes-reactive human antisera. Biotinylation of the GAS cell surface identified 23 cell wall-associated proteins that are surface exposed.

  9. The Current Situation and Financial Performance Analyses of Rice Farmers Associations

    Directory of Open Access Journals (Sweden)

    Faruk Adıgüzel

    2015-09-01

    Full Text Available The aim of this study is to determine the current situation and to analyze financial performance of rice farmers associations. The data obtained with the questionnaire method from a single rice farmers association selected as purposeful constitute material of the research. First, a general assessment of the association was conducted, and then, the financial performance of the association was analyzed using Financial Statement Analysis, Percentage Method, Trend Analysis and Ratio Analysis techniques with the aid of financial statement and income chart for the period of 2011-2013. As a result, it is determined association was founded in 2006, have a total of 220 active members and 10 women members in district and 18 villages and two university graduate staff. In addition, management and audit committee members are men, middle-aged, and primary or secondary graduated. The participation rate of members in general assembly is high. The important problems of the association are lack of solidarity among members and irregular payment of membership’s fee. In the period under investigation, decreased use of external resource, strengthening equity and increased profitability in the association were determined. It is possible to develop association as financial statue with positive relationships between association and members and activation of association in terms of marketing.

  10. Genome-wide meta-analyses identify multiple loci associated with smoking behavior

    NARCIS (Netherlands)

    H. Furberg (Helena); Y. Kim (Yunjung); J. Dackor (Jennifer); E. Boerwinkle (Eric); N. Franceschini (Nora); D. Ardissino (Diego); L. Bernardinelli (Luisa); P.M. Mannucci (Pier); F. Mauri (Francesco); P.A. Merlini (Piera); D. Absher (Devin); T.L. Assimes (Themistocles); S.P. Fortmann (Stephen); C. Iribarren (Carlos); J.W. Knowles (Joshua); T. Quertermous (Thomas); L. Ferrucci (Luigi); T. Tanaka (Toshiko); J.C. Bis (Joshua); T. Haritunians (Talin); B. McKnight (Barbara); B.M. Psaty (Bruce); K.D. Taylor (Kent); E.L. Thacker (Evan); P. Almgren (Peter); L. Groop (Leif); C. Ladenvall (Claes); M. Boehnke (Michael); A.U. Jackson (Anne); K.L. Mohlke (Karen); H.M. Stringham (Heather); J. Tuomilehto (Jaakko); E.J. Benjamin (Emelia); S.J. Hwang; D. Levy (Daniel); S.R. Preis; R.S. Vasan (Ramachandran Srini); J. Duan (Jubao); P.V. Gejman (Pablo); D.F. Levinson (Douglas); A.R. Sanders (Alan); J. Shi (Jianxin); E.H. Lips (Esther); J.D. McKay (James); A. Agudo (Antonio); L. Barzan (Luigi); V. Bencko (Vladimir); S. Benhamou (Simone); X. Castellsagué (Xavier); C. Canova (Cristina); D.I. Conway (David); E. Fabianova (Eleonora); L. Foretova (Lenka); V. Janout (Vladimir); C.M. Healy (Claire); I. Holcátová (Ivana); K. Kjaerheim (Kristina); P. Lagiou; J. Lissowska (Jolanta); R. Lowry (Ray); T.V. MacFarlane (Tatiana); D. Mates (Dana); L. Richiardi (Lorenzo); P. Rudnai (Peter); N. Szeszenia-Dabrowska (Neonilia); D. Zaridze; A. Znaor (Ariana); M. Lathrop (Mark); P. Brennan (Paul); S. Bandinelli (Stefania); T.M. Frayling (Timothy); J.M. Guralnik (Jack); Y. Milaneschi (Yuri); J.R.B. Perry (John); D. Altshuler (David); R. Elosua (Roberto); S. Kathiresan (Sekar); G. Lucas (Gavin); O. Melander (Olle); V. Salomaa (Veikko); S.M. Schwartz (Stephen); B.F. Voight (Benjamin); B.W.J.H. Penninx (Brenda); J.H. Smit (Johannes); N. Vogelzangs (Nicole); D.I. Boomsma (Dorret); E.J.C. de Geus (Eco); J.M. Vink (Jacqueline); G.A.H.M. Willemsen (Gonneke); S.J. Chanock (Stephen); F. Gu (Fangyi); S.E. Hankinson (Susan); D. Hunter (David); A. Hofman (Albert); H.W. Tiemeier (Henning); A.G. Uitterlinden (André); P. Tikka-Kleemola (Päivi); S. Walter (Stefan); D.I. Chasman (Daniel); B.M. Everett (Brendan); G. Pare (Guillaume); P.M. Ridker (Paul); M.D. Li (Ming); H.H. Maes (Hermine); J. Audrain-Mcgovern (Janet); D. Posthuma (Danielle); L.M. Thornton (Laura); C. Lerman (Caryn); J. Kaprio (Jaakko); J.E. Rose (Jed); J.P.A. Ioannidis (John); P. Kraft (Peter); D.Y. Lin (Dan); P.F. Sullivan (Patrick); C.J. O'Donnell (Christopher)

    2010-01-01

    textabstractConsistent but indirect evidence has implicated genetic factors in smoking behavior. We report meta-analyses of several smoking phenotypes within cohorts of the Tobacco and Genetics Consortium (n = 74,053). We also partnered with the European Network of Genetic and Genomic Epidemiology (

  11. Clinical, polysomnographic and genome-wide association analyses of narcolepsy with cataplexy

    DEFF Research Database (Denmark)

    Luca, Gianina; Haba-Rubio, José; Dauvilliers, Yves;

    2013-01-01

    The aim of this study was to describe the clinical and PSG characteristics of narcolepsy with cataplexy and their genetic predisposition by using the retrospective patient database of the European Narcolepsy Network (EU-NN). We have analysed retrospective data of 1099 patients with narcolepsy dia...

  12. Large-scale association analyses identify new loci influencing glycemic traits and provide insight into the underlying biological pathways

    DEFF Research Database (Denmark)

    Scott, Robert A; Lagou, Vasiliki; Welch, Ryan P;

    2012-01-01

    Through genome-wide association meta-analyses of up to 133,010 individuals of European ancestry without diabetes, including individuals newly genotyped using the Metabochip, we have increased the number of confirmed loci influencing glycemic traits to 53, of which 33 also increase type 2 diabetes...

  13. Large-scale association analyses identify new loci influencing glycemic traits and provide insight into the underlying biological pathways

    NARCIS (Netherlands)

    Scott, Robert A.; Lagou, Vasiliki; Welch, Ryan P.; Wheeler, Eleanor; Montasser, May E.; Luan, Jian'an; Maegi, Reedik; Strawbridge, Rona J.; Rehnberg, Emil; Gustafsson, Stefan; Kanoni, Stavroula; Rasmussen-Torvik, Laura J.; Yengo, Loic; Lecoeur, Cecile; Shungin, Dmitry; Sanna, Serena; Sidore, Carlo; Johnson, Paul C. D.; Jukema, J. Wouter; Johnson, Toby; Mahajan, Anubha; Verweij, Niek; Thorleifsson, Gudmar; Hottenga, Jouke-Jan; Shah, Sonia; Smith, Albert V.; Sennblad, Bengt; Gieger, Christian; Salo, Perttu; Perola, Markus; Timpson, Nicholas J.; Evans, David M.; St Pourcain, Beate; Wu, Ying; Andrews, Jeanette S.; Hui, Jennie; Bielak, Lawrence F.; Zhao, Wei; Horikoshi, Momoko; Navarro, Pau; Isaacs, Aaron; O'Connell, Jeffrey R.; Stirrups, Kathleen; Vitart, Veronique; Hayward, Caroline; Esko, Tonu; Mihailov, Evelin; Fraser, Ross M.; Fall, Tove; Voight, Benjamin F.; Raychaudhuri, Soumya; Chen, Han; Lindgren, Cecilia M.; Morris, Andrew P.; Rayner, Nigel W.; Robertson, Neil; Rybin, Denis; Liu, Ching-Ti; Beckmann, Jacques S.; Willems, Sara M.; Chines, Peter S.; Jackson, Anne U.; Kang, Hyun Min; Stringham, Heather M.; Song, Kijoung; Tanaka, Toshiko; Peden, John F.; Goel, Anuj; Hicks, Andrew A.; An, Ping; Mueller-Nurasyid, Martina; Franco-Cereceda, Anders; Folkersen, Lasse; Marullo, Letizia; Jansen, Hanneke; Oldehinkel, Albertine J.; Bruinenberg, Marcel; Pankow, James S.; North, Kari E.; Forouhi, Nita G.; Loos, Ruth J. F.; Edkins, Sarah; Varga, Tibor V.; Hallmans, Goeran; Oksa, Heikki; Antonella, Mulas; Nagaraja, Ramaiah; Trompet, Stella; Ford, Ian; Bakker, Stephan J. L.; Kong, Augustine; Kumari, Meena; Gigante, Bruna; Herder, Christian; Munroe, Patricia B.; Caulfield, Mark; Antti, Jula; Mangino, Massimo; Small, Kerrin; Miljkovic, Iva; Liu, Yongmei; Atalay, Mustafa; Kiess, Wieland; James, Alan L.; Rivadeneira, Fernando; Uitterlinden, Andre G.; Palmer, Colin N. A.; Doney, Alex S. F.; Willemsen, Gonneke; Smit, Johannes H.; Campbell, Susan; Polasek, Ozren; Bonnycastle, Lori L.; Hercberg, Serge; Dimitriou, Maria; Bolton, Jennifer L.; Fowkes, Gerard R.; Kovacs, Peter; Lindstrom, Jaana; Zemunik, Tatijana; Bandinelli, Stefania; Wild, Sarah H.; Basart, Hanneke V.; Rathmann, Wolfgang; Grallert, Harald; Maerz, Winfried; Kleber, Marcus E.; Boehm, Bernhard O.; Peters, Annette; Pramstaller, Peter P.; Province, Michael A.; Borecki, Ingrid B.; Hastie, Nicholas D.; Rudan, Igor; Campbell, Harry; Watkins, Hugh; Farrall, Martin; Stumvoll, Michael; Ferrucci, Luigi; Waterworth, Dawn M.; Bergman, Richard N.; Collins, Francis S.; Tuomilehto, Jaakko; Watanabe, Richard M.; de Geus, Eco J. C.; Penninx, Brenda W.; Hofman, Albert; Oostra, Ben A.; Psaty, Bruce M.; Vollenweider, Peter; Wilson, James F.; Wright, Alan F.; Hovingh, G. Kees; Metspalu, Andres; Uusitupa, Matti; Magnusson, Patrik K. E.; Kyvik, Kirsten O.; Kaprio, Jaakko; Price, Jackie F.; Dedoussis, George V.; Deloukas, Panos; Meneton, Pierre; Lind, Lars; Boehnke, Michael; Shuldiner, Alan R.; van Duijn, Cornelia M.; Morris, Andrew D.; Toenjes, Anke; Peyser, Patricia A.; Beilby, John P.; Koerner, Antje; Kuusisto, Johanna; Laakso, Markku; Bornstein, Stefan R.; Schwarz, Peter E. H.; Lakka, Timo A.; Rauramaa, Rainer; Adair, Linda S.; Smith, George Davey; Spector, Tim D.; Illig, Thomas; de Faire, Ulf; Hamsten, Anders; Gudnason, Vilmundur; Kivimaki, Mika; Hingorani, Aroon; Keinanen-Kiukaanniemi, Sirkka M.; Saaristo, Timo E.; Boomsma, Dorret I.; Stefansson, Kari; van der Harst, Pim; Dupuis, Josee; Pedersen, Nancy L.; Sattar, Naveed; Harris, Tamara B.; Cucca, Francesco; Ripatti, Samuli; Salomaa, Veikko; Mohlke, Karen L.; Balkau, Beverley; Froguel, Philippe; Pouta, Anneli; Jarvelin, Marjo-Riitta; Wareham, Nicholas J.; Bouatia-Naji, Nabila; McCarthy, Mark I.; Franks, Paul W.; Meigs, James B.; Teslovich, Tanya M.; Florez, Jose C.; Langenberg, Claudia; Ingelsson, Erik; Prokopenko, Inga; Barroso, Ines

    2012-01-01

    Through genome-wide association meta-analyses of up to 133,010 individuals of European ancestry without diabetes, including individuals newly genotyped using the Metabochip, we have increased the number of confirmed loci influencing glycemic traits to 53, of which 33 also increase type 2 diabetes ri

  14. Psychiatric genome-wide association study analyses implicate neuronal, immune and histone pathways

    DEFF Research Database (Denmark)

    O'Dushlaine, Colm; Rossin, Lizzy; Lee, Phil H.;

    2015-01-01

    Genome-wide association studies (GWAS) of psychiatric disorders have identified multiple genetic associations with such disorders, but better methods are needed to derive the underlying biological mechanisms that these signals indicate. We sought to identify biological pathways in GWAS data from ...

  15. Psychiatric genome-wide association study analyses implicate neuronal, immune and histone pathways

    NARCIS (Netherlands)

    O'Dushlaine, Colm; Rossin, Lizzy; Lee, Phil H.; Duncan, Laramie; Parikshak, Neelroop N.; Newhouse, Stephen; Ripke, Stephan; Neale, Benjamin M.; Purcell, Shaun M.; Posthuma, Danielle; Nurnberger, John I.; Lee, S. Hong; Faraone, Stephen V.; Perlis, Roy H.; Mowry, Bryan J.; Thapar, Anita; Goddard, Michael E.; Witte, John S.; Absher, Devin; Agartz, Ingrid; Akil, Huda; Amin, Farooq; Andreassen, Ole A.; Anjorin, Adebayo; Anney, Richard; Anttila, Verneri; Arking, Dan E.; Asherson, Philip; Azevedo, Maria H.; Backlund, Lena; Badner, Judith A.; Bailey, Anthony J.; Banaschewski, Tobias; Barchas, Jack D.; Barnes, Michael R.; Barrett, Thomas B.; Bass, Nicholas; Battaglia, Agatino; Bauer, Michael; Bayes, Monica; Bellivier, Frank; Bergen, Sarah E.; Berrettini, Wade; Betancur, Catalina; Bettecken, Thomas; Biederman, Joseph; Binder, Elisabeth B.; Black, Donald W.; Blackwood, Douglas H. R.; Bloss, Cinnamon S.; Boehnke, Michael; Boomsma, Dorret I.; Breuer, Rene; Bruggeman, Richard; Cormican, Paul; Buccola, Nancy G.; Buitelaar, Jan K.; Bunney, William E.; Buxbaum, Joseph D.; Byerley, William F.; Byrne, Enda M.; Caesar, Sian; Cahn, Wiepke; Cantor, Rita M.; Casas, Miguel; Chakravarti, Aravinda; Chambert, Kimberly; Choudhury, Khalid; Cichon, Sven; Mattheisen, Manuel; Cloninger, C. Robert; Collier, David A.; Cook, Edwin H.; Coon, Hilary; Cormand, Bru; Corvin, Aiden; Coryell, William H.; Craig, David W.; Craig, Ian W.; Crosbie, Jennifer; Cuccaro, Michael L.; Curtis, David; Czamara, Darina; Datta, Susmita; Dawson, Geraldine; Day, Richard; De Geus, Eco J.; Degenhardt, Franziska; Djurovic, Srdjan; Donohoe, Gary J.; Doyle, Alysa E.; Duan, Jubao; Dudbridge, Frank; Duketis, Eftichia; Ebstein, Richard P.; Edenberg, Howard J.; Elia, Josephine; Ennis, Sean; Etain, Bruno; Fanous, Ayman; Farmer, Anne E.; Ferrier, I. Nicol; Flicldnger, Matthew; Fombonne, Eric; Foroud, Tatiana; Frank, Josef; Franke, Barbara; Fraser, Christine; Freedman, Robert; Freimer, Nelson B.; Freitag, Christine M.; Friedl, Marion; Frisen, Louise; Gailagher, Louise; Gejman, Pablo V.; Georgieva, Lyudmila; Gershon, Elliot S.; Giegling, Ina; Gill, Michael; Gordon, Scott D.; Gordon-Smith, Katherine; Green, Elaine K.; Greenwood, Tiffany A.; Grice, Dorothy E.; Gross, Magdalena; Grozeva, Detelina; Guan, Weihua; Gurling, Hugh; De Haan, Lieuwe; Haines, Jonathan L.; Hakonarson, Hakon; Hallmayer, Joachim; Hamilton, Steven P.; Hamshere, Marian L.; Hansen, Thomas F.; Hartmann, Annette M.; Hautzinger, Martin; Heath, Andrew C.; Henders, Anjali K.; Herms, Stefan; Hickie, Ian B.; Hipolito, Maria; Hoefels, Susanne; Holsboer, Florian; Hoogendijk, Witte J.; Hottenga, Jouke-Jan; Hultman, Christina M.; Hus, Vanessa; Ingason, Andres; Ising, Marcus; Jamain, Stephane; Jones, Edward G.; Jones, Ian; Jones, Lisa; Tzeng, Jung-Ying; Kaehler, Anna K.; Kahn, Rene S.; Kandaswamy, Radhika; Keller, Matthew C.; Kennedy, James L.; Kenny, Elaine; Kent, Lindsey; Kim, Yunjung; Kirov, George K.; Klauck, Sabine M.; Klei, Lambertus; Knowles, James A.; Kohli, Martin A.; Koller, Daniel L.; Konte, Bettina; Korszun, Ania; Krabbendam, Lydia; Krasucki, Robert; Kuntsi, Jonna; Kwan, Phoenix; Landen, Mikael; Laengstroem, Niklas; Lathrop, Mark; Lawrence, Jacob; Lawson, William B.; Leboyer, Marion; Ledbetter, David H.; Lencz, Todd; Lesch, Klaus-Peter; Levinson, Douglas F.; Lewis, Cathryn M.; Li, Jun; Lichtenstein, Paul; Lieberman, Jeffrey A.; Lin, Dan-Yu; Linszen, Don H.; Liu, Chunyu; Lohoff, Falk W.; Loo, Sandra K.; Lord, Catherine; Lowe, Jennifer K.; Lucae, Susanne; MacIntyre, Donald J.; Madden, Pamela A. F.; Maestrini, Elena; Magnusson, Patrik K. E.; Mahon, Pamela B.; Maier, Wolfgang; Malhotra, Anil K.; Mane, Shrikant M.; Martin, Christa L.; Martin, Nicholas G.; Matthews, Keith; Mattingsdal, Morten; McCarroll, Steven A.; McGhee, Kevin A.; McGough, James J.; McGrath, Patrick J.; McGuffin, Peter; McInnis, Melvin G.; McIntosh, Andrew; McKinney, Rebecca; McLean, Alan W.; McMahon, Francis J.; McMahon, William M.; McQuillin, Andrew; Medeiros, Helena; Medland, Sarah E.; Meier, Sandra; Melle, Ingrid; Meng, Fan; Meyer, Jobst; Middeldorp, Christel M.; Middleton, Lefkos; Milanova, Vihra; Miranda, Ana; Monaco, Anthony P.; Montgomery, Grant W.; Moran, Jennifer L.; Moreno-De-Luca, Daniel; Morken, Gunnar; Morris, Derek W.; Morrow, Eric M.; Moskvina, Valentina; Muglia, Pierandrea; Muehleisen, Thomas W.; Muir, Walter J.; Mueller-Myhsok, Bertram; Murtha, Michael; Myers, Richard M.; Myin-Germeys, Inez; Neale, Michael C.; Nelson, Stan F.; Nievergelt, Caroline M.; Nikolov, Ivan; Nimgaonkar, Vishwajit; Nolen, Willem A.; Noethen, Markus M.; Nwulia, Evaristus A.; Nyholt, Dale R.; Oades, Robert D.; Olincy, Ann; Oliveira, Guiomar; Olsen, Line; Ophoff, Roel A.; Osby, Urban; Owen, Michael J.; Palotie, Aarno; Parr, Jeremy R.; Paterson, Andrew D.; Pato, Carlos N.; Pato, Michele T.; Penninx, Brenda W.; Pergadia, Michele L.; Pericak-Vance, Margaret A.; Pickard, Benjamin S.; Pimm, Jonathan; Piven, Joseph; Potash, James B.; Poustka, Fritz; Propping, Peter; Puri, Vinay; Quested, Digby J.; Quinn, Emma M.; Ramos-Quiroga, Josep Antoni; Rasmussen, Henrik B.; Raychaudhuri, Soumya; Rehnstroem, Karola; Reif, Andreas; Ribases, Marta; Rice, John P.; Rietschel, Marcella; Roeder, Kathryn; Roeyers, Herbert; Rothenberger, Aribert; Rouleau, Guy; Ruderfer, Douglas; Rujescu, Dan; Sanders, Alan R.; Sanders, Stephan J.; Santangelo, Susan L.; Sergeant, Joseph A.; Schachar, Russell; Schalling, Martin; Schatzberg, Alan F.; Scheftner, William A.; Schellenberg, Gerard D.; Scherer, Stephen W.; Schork, Nicholas J.; Schulze, Thomas G.; Schumacher, Johannes; Schwarz, Markus; Scolnick, Edward; Scott, Laura J.; Shi, Jianxin; Shilling, Paul D.; Shyn, Stanley I.; Silverman, Jeremy M.; Slager, Susan L.; Smalley, Susan L.; Smit, Johannes H.; Smith, Erin N.; Sonuga-Barke, Edmund J. S.; Cair, David St.; State, Matthew; Steffens, Michael; Steinhausen, Hans-Christoph; Strauss, John S.; Strohmaier, Jana; Stroup, T. Scott; Sutdiffe, James S.; Szatmari, Peter; Szelinger, Szabocls; Thirumalai, Srinivasa; Thompson, Robert C.; Todorov, Alexandre A.; Tozzi, Federica; Treutlein, Jens; Uhr, Manfred; Van den Oord, Edwin J. C. G.; Van Grootheest, Gerard; Van Os, Jim; Vicente, Astrid M.; Vieland, Veronica J.; Vincent, John B.; Visscher, Peter M.; Walsh, Christopher A.; Wassink, Thomas H.; Watson, Stanley J.; Weissman, Myrna M.; Werge, Thomas; Wienker, Thomas F.; Wijsman, Ellen M.; Willemsen, Gonneke; Williams, Nigel; Willsey, A. Jeremy; Witt, Stephanie H.; Xu, Wei; Young, Allan H.; Yu, Timothy W.; Zammit, Stanley; Zandi, Peter P.; Zhang, Peng; Zitman, Frans G.; Zoellner, Sebastian; Devlin, Bernie; Kelsoe, John R.; Sklar, Pamela; Daly, Mark J.; O'Donovan, Michael C.; Craddock, Nicholas; Kendler, Kenneth S.; Weiss, Lauren A.; Wray, Naomi R.; Zhao, Zhaoming; Geschwind, Daniel H.; Sullivan, Patrick F.; Smoller, Jordan W.; Holmans, Peter A.; Breen, Gerome

    2015-01-01

    Genome-wide association studies (GWAS) of psychiatric disorders have identified multiple genetic associations with such disorders, but better methods are needed to derive the underlying biological mechanisms that these signals indicate. We sought to identify biological pathways in GWAS data from ove

  16. Integrated analyses of gene expression and genetic association studies in a founder population

    Science.gov (United States)

    Cusanovich, Darren A.; Caliskan, Minal; Billstrand, Christine; Michelini, Katelyn; Chavarria, Claudia; De Leon, Sherryl; Mitrano, Amy; Lewellyn, Noah; Elias, Jack A.; Chupp, Geoffrey L.; Lang, Roberto M.; Shah, Sanjiv J.; Decara, Jeanne M.; Gilad, Yoav; Ober, Carole

    2016-01-01

    Genome-wide association studies (GWASs) have become a standard tool for dissecting genetic contributions to disease risk. However, these studies typically require extraordinarily large sample sizes to be adequately powered. Strategies that incorporate functional information alongside genetic associations have proved successful in increasing GWAS power. Following this paradigm, we present the results of 20 different genetic association studies for quantitative traits related to complex diseases, conducted in the Hutterites of South Dakota. To boost the power of these association studies, we collected RNA-sequencing data from lymphoblastoid cell lines for 431 Hutterite individuals. We then used Sherlock, a tool that integrates GWAS and expression quantitative trait locus (eQTL) data, to identify weak GWAS signals that are also supported by eQTL data. Using this approach, we found novel associations with quantitative phenotypes related to cardiovascular disease, including carotid intima-media thickness, left atrial volume index, monocyte count and serum YKL-40 levels. PMID:26931462

  17. Large-scale association analyses identify new loci influencing glycemic traits and provide insight into the underlying biological pathways

    Science.gov (United States)

    Scott, Robert A; Lagou, Vasiliki; Welch, Ryan P; Wheeler, Eleanor; Montasser, May E; Luan, Jian’an; Mägi, Reedik; Strawbridge, Rona J; Rehnberg, Emil; Gustafsson, Stefan; Kanoni, Stavroula; Rasmussen-Torvik, Laura J; Yengo, Loïc; Lecoeur, Cecile; Shungin, Dmitry; Sanna, Serena; Sidore, Carlo; Johnson, Paul C D; Jukema, J Wouter; Johnson, Toby; Mahajan, Anubha; Verweij, Niek; Thorleifsson, Gudmar; Hottenga, Jouke-Jan; Shah, Sonia; Smith, Albert V; Sennblad, Bengt; Gieger, Christian; Salo, Perttu; Perola, Markus; Timpson, Nicholas J; Evans, David M; Pourcain, Beate St; Wu, Ying; Andrews, Jeanette S; Hui, Jennie; Bielak, Lawrence F; Zhao, Wei; Horikoshi, Momoko; Navarro, Pau; Isaacs, Aaron; O’Connell, Jeffrey R; Stirrups, Kathleen; Vitart, Veronique; Hayward, Caroline; Esko, Tönu; Mihailov, Evelin; Fraser, Ross M; Fall, Tove; Voight, Benjamin F; Raychaudhuri, Soumya; Chen, Han; Lindgren, Cecilia M; Morris, Andrew P; Rayner, Nigel W; Robertson, Neil; Rybin, Denis; Liu, Ching-Ti; Beckmann, Jacques S; Willems, Sara M; Chines, Peter S; Jackson, Anne U; Kang, Hyun Min; Stringham, Heather M; Song, Kijoung; Tanaka, Toshiko; Peden, John F; Goel, Anuj; Hicks, Andrew A; An, Ping; Müller-Nurasyid, Martina; Franco-Cereceda, Anders; Folkersen, Lasse; Marullo, Letizia; Jansen, Hanneke; Oldehinkel, Albertine J; Bruinenberg, Marcel; Pankow, James S; North, Kari E; Forouhi, Nita G; Loos, Ruth J F; Edkins, Sarah; Varga, Tibor V; Hallmans, Göran; Oksa, Heikki; Antonella, Mulas; Nagaraja, Ramaiah; Trompet, Stella; Ford, Ian; Bakker, Stephan J L; Kong, Augustine; Kumari, Meena; Gigante, Bruna; Herder, Christian; Munroe, Patricia B; Caulfield, Mark; Antti, Jula; Mangino, Massimo; Small, Kerrin; Miljkovic, Iva; Liu, Yongmei; Atalay, Mustafa; Kiess, Wieland; James, Alan L; Rivadeneira, Fernando; Uitterlinden, Andre G; Palmer, Colin N A; Doney, Alex S F; Willemsen, Gonneke; Smit, Johannes H; Campbell, Susan; Polasek, Ozren; Bonnycastle, Lori L; Hercberg, Serge; Dimitriou, Maria; Bolton, Jennifer L; Fowkes, Gerard R; Kovacs, Peter; Lindström, Jaana; Zemunik, Tatijana; Bandinelli, Stefania; Wild, Sarah H; Basart, Hanneke V; Rathmann, Wolfgang; Grallert, Harald; Maerz, Winfried; Kleber, Marcus E; Boehm, Bernhard O; Peters, Annette; Pramstaller, Peter P; Province, Michael A; Borecki, Ingrid B; Hastie, Nicholas D; Rudan, Igor; Campbell, Harry; Watkins, Hugh; Farrall, Martin; Stumvoll, Michael; Ferrucci, Luigi; Waterworth, Dawn M; Bergman, Richard N; Collins, Francis S; Tuomilehto, Jaakko; Watanabe, Richard M; de Geus, Eco J C; Penninx, Brenda W; Hofman, Albert; Oostra, Ben A; Psaty, Bruce M; Vollenweider, Peter; Wilson, James F; Wright, Alan F; Hovingh, G Kees; Metspalu, Andres; Uusitupa, Matti; Magnusson, Patrik K E; Kyvik, Kirsten O; Kaprio, Jaakko; Price, Jackie F; Dedoussis, George V; Deloukas, Panos; Meneton, Pierre; Lind, Lars; Boehnke, Michael; Shuldiner, Alan R; van Duijn, Cornelia M; Morris, Andrew D; Toenjes, Anke; Peyser, Patricia A; Beilby, John P; Körner, Antje; Kuusisto, Johanna; Laakso, Markku; Bornstein, Stefan R; Schwarz, Peter E H; Lakka, Timo A; Rauramaa, Rainer; Adair, Linda S; Smith, George Davey; Spector, Tim D; Illig, Thomas; de Faire, Ulf; Hamsten, Anders; Gudnason, Vilmundur; Kivimaki, Mika; Hingorani, Aroon; Keinanen-Kiukaanniemi, Sirkka M; Saaristo, Timo E; Boomsma, Dorret I; Stefansson, Kari; van der Harst, Pim; Dupuis, Josée; Pedersen, Nancy L; Sattar, Naveed; Harris, Tamara B; Cucca, Francesco; Ripatti, Samuli; Salomaa, Veikko; Mohlke, Karen L; Balkau, Beverley; Froguel, Philippe; Pouta, Anneli; Jarvelin, Marjo-Riitta; Wareham, Nicholas J; Bouatia-Naji, Nabila; McCarthy, Mark I; Franks, Paul W; Meigs, James B; Teslovich, Tanya M; Florez, Jose C; Langenberg, Claudia; Ingelsson, Erik; Prokopenko, Inga; Barroso, Inês

    2012-01-01

    Through genome-wide association meta-analyses of up to 133,010 individuals of European ancestry without diabetes, including individuals newly genotyped using the Metabochip, we have raised the number of confirmed loci influencing glycemic traits to 53, of which 33 also increase type 2 diabetes risk (q < 0.05). Loci influencing fasting insulin showed association with lipid levels and fat distribution, suggesting impact on insulin resistance. Gene-based analyses identified further biologically plausible loci, suggesting that additional loci beyond those reaching genome-wide significance are likely to represent real associations. This conclusion is supported by an excess of directionally consistent and nominally significant signals between discovery and follow-up studies. Functional follow-up of these newly discovered loci will further improve our understanding of glycemic control. PMID:22885924

  18. Large-scale association analyses identifies 13 new susceptibility loci for coronary artery disease

    Science.gov (United States)

    Schunkert, Heribert; König, Inke R.; Kathiresan, Sekar; Reilly, Muredach P.; Assimes, Themistocles L.; Holm, Hilma; Preuss, Michael; Stewart, Alexandre F. R.; Barbalic, Maja; Gieger, Christian; Absher, Devin; Aherrahrou, Zouhair; Allayee, Hooman; Altshuler, David; Anand, Sonia S.; Andersen, Karl; Anderson, Jeffrey L.; Ardissino, Diego; Ball, Stephen G.; Balmforth, Anthony J.; Barnes, Timothy A.; Becker, Diane M.; Becker, Lewis C.; Berger, Klaus; Bis, Joshua C.; Boekholdt, S. Matthijs; Boerwinkle, Eric; Braund, Peter S.; Brown, Morris J.; Burnett, Mary Susan; Buysschaert, Ian; Carlquist, Cardiogenics, John F.; Chen, Li; Cichon, Sven; Codd, Veryan; Davies, Robert W.; Dedoussis, George; Dehghan, Abbas; Demissie, Serkalem; Devaney, Joseph M.; Do, Ron; Doering, Angela; Eifert, Sandra; El Mokhtari, Nour Eddine; Ellis, Stephen G.; Elosua, Roberto; Engert, James C.; Epstein, Stephen E.; Faire, Ulf de; Fischer, Marcus; Folsom, Aaron R.; Freyer, Jennifer; Gigante, Bruna; Girelli, Domenico; Gretarsdottir, Solveig; Gudnason, Vilmundur; Gulcher, Jeffrey R.; Halperin, Eran; Hammond, Naomi; Hazen, Stanley L.; Hofman, Albert; Horne, Benjamin D.; Illig, Thomas; Iribarren, Carlos; Jones, Gregory T.; Jukema, J.Wouter; Kaiser, Michael A.; Kaplan, Lee M.; Kastelein, John J.P.; Khaw, Kay-Tee; Knowles, Joshua W.; Kolovou, Genovefa; Kong, Augustine; Laaksonen, Reijo; Lambrechts, Diether; Leander, Karin; Lettre, Guillaume; Li, Mingyao; Lieb, Wolfgang; Linsel-Nitschke, Patrick; Loley, Christina; Lotery, Andrew J.; Mannucci, Pier M.; Maouche, Seraya; Martinelli, Nicola; McKeown, Pascal P.; Meisinger, Christa; Meitinger, Thomas; Melander, Olle; Merlini, Pier Angelica; Mooser, Vincent; Morgan, Thomas; Mühleisen, Thomas W.; Muhlestein, Joseph B.; Münzel, Thomas; Musunuru, Kiran; Nahrstaedt, Janja; Nelson, Christopher P.; Nöthen, Markus M.; Olivieri, Oliviero; Patel, Riyaz S.; Patterson, Chris C.; Peters, Annette; Peyvandi, Flora; Qu, Liming; Quyyumi, Arshed A.; Rader, Daniel J.; Rallidis, Loukianos S.; Rice, Catherine; Rosendaal, Frits R.; Rubin, Diana; Salomaa, Veikko; Sampietro, M. Lourdes; Sandhu, Manj S.; Schadt, Eric; Schäfer, Arne; Schillert, Arne; Schreiber, Stefan; Schrezenmeir, Jürgen; Schwartz, Stephen M.; Siscovick, David S.; Sivananthan, Mohan; Sivapalaratnam, Suthesh; Smith, Albert; Smith, Tamara B.; Snoep, Jaapjan D.; Soranzo, Nicole; Spertus, John A.; Stark, Klaus; Stirrups, Kathy; Stoll, Monika; Tang, W. H. Wilson; Tennstedt, Stephanie; Thorgeirsson, Gudmundur; Thorleifsson, Gudmar; Tomaszewski, Maciej; Uitterlinden, Andre G.; van Rij, Andre M.; Voight, Benjamin F.; Wareham, Nick J.; Wells, George A.; Wichmann, H.-Erich; Wild, Philipp S.; Willenborg, Christina; Witteman, Jaqueline C. M.; Wright, Benjamin J.; Ye, Shu; Zeller, Tanja; Ziegler, Andreas; Cambien, Francois; Goodall, Alison H.; Cupples, L. Adrienne; Quertermous, Thomas; März, Winfried; Hengstenberg, Christian; Blankenberg, Stefan; Ouwehand, Willem H.; Hall, Alistair S.; Deloukas, Panos; Thompson, John R.; Stefansson, Kari; Roberts, Robert; Thorsteinsdottir, Unnur; O’Donnell, Christopher J.; McPherson, Ruth; Erdmann, Jeanette; Samani, Nilesh J.

    2011-01-01

    We performed a meta-analysis of 14 genome-wide association studies of coronary artery disease (CAD) comprising 22,233 cases and 64,762 controls of European descent, followed by genotyping of top association signals in 60,738 additional individuals. This genomic analysis identified 13 novel loci harboring one or more SNPs that were associated with CAD at P<5×10−8 and confirmed the association of 10 of 12 previously reported CAD loci. The 13 novel loci displayed risk allele frequencies ranging from 0.13 to 0.91 and were associated with a 6 to 17 percent increase in the risk of CAD per allele. Notably, only three of the novel loci displayed significant association with traditional CAD risk factors, while the majority lie in gene regions not previously implicated in the pathogenesis of CAD. Finally, five of the novel CAD risk loci appear to have pleiotropic effects, showing strong association with various other human diseases or traits. PMID:21378990

  19. Genome-wide meta-analyses identify three loci associated with primary biliary cirrhosis

    Science.gov (United States)

    Liu, Xiangdong; Invernizzi, Pietro; Lu, Yue; Kosoy, Roman; Lu, Yan; Bianchi, Ilaria; Podda, Mauro; Xu, Chun; Xie, Gang; Macciardi, Fabio; Selmi, Carlo; Lupoli, Sara; Shigeta, Russell; Ransom, Michael; Lleo, Ana; Lee, Annette T; Mason, Andrew L; Myers, Robert P; Peltekian, Kevork M; Ghent, Cameron N; Bernuzzi, Francesca; Zuin, Massimo; Rosina, Floriano; Borghesio, Elisabetta; Floreani, Annarosa; Lazzari, Roberta; Niro, Grazia; Andriulli, Angelo; Muratori, Luigi; Muratori, Paolo; Almasio, Piero L; Andreone, Pietro; Margotti, Marzia; Brunetto, Maurizia; Coco, Barbara; Alvaro, Domenico; Bragazzi, Maria C; Marra, Fabio; Pisano, Alessandro; Rigamonti, Cristina; Colombo, Massimo; Marzioni, Marco; Benedetti, Antonio; Fabris, Luca; Strazzabosco, Mario; Portincasa, Piero; Palmieri, Vincenzo O; Tiribelli, Claudio; Croce, Lory; Bruno, Savino; Rossi, Sonia; Vinci, Maria; Prisco, Cleofe; Mattalia, Alberto; Toniutto, Pierluigi; Picciotto, Antonio; Galli, Andrea; Ferrari, Carlo; Colombo, Silvia; Casella, Giovanni; Morini, Lorenzo; Caporaso, Nicola; Colli, Agostino; Spinzi, Giancarlo; Montanari, Renzo; Gregersen, Peter K; Heathcote, E Jenny; Hirschfield, Gideon M; Siminovitch, Katherine A; Amos, Christopher I; Gershwin, M Eric; Seldin, Michael F

    2011-01-01

    A genome-wide association screen for primary biliary cirrhosis risk alleles was performed in an Italian cohort. The results from the Italian cohort replicated IL12A and IL12RB associations, and a combined meta-analysis using a Canadian dataset identified newly associated loci at SPIB (P = 7.9 × 10–11, odds ratio (OR) = 1.46), IRF5-TNPO3 (P = 2.8 × 10–10, OR = 1.63) and 17q12-21 (P = 1.7 × 10–10, OR = 1.38). PMID:20639880

  20. Genome-wide meta-analyses identify three loci associated with primary biliary cirrhosis

    OpenAIRE

    Liu, Xiangdong; Invernizzi, Pietro; Lu, Yue,; Kosoy, Roman; Lu, Yan; Bianchi, Ilaria; Podda, Mauro; Chun XU; Xie, Gang; Macciardi, Fabio; Selmi, Carlo; Lupoli, Sara; Shigeta, Russell; Ransom, Michael; Lleo, Ana

    2010-01-01

    A genome-wide association screen for primary biliary cirrhosis risk alleles was performed in an Italian cohort. The results from the Italian cohort replicated IL12A and IL12RB associations, and a combined meta-analysis using a Canadian dataset identified newly associated loci at SPIB (P = 7.9 × 10–11, odds ratio (OR) = 1.46), IRF5-TNPO3 (P = 2.8 × 10–10, OR = 1.63) and 17q12-21 (P = 1.7 × 10–10, OR = 1.38).

  1. Preparation of biodegradable PLA/PLGA membranes with PGA mesh and their application for periodontal guided tissue regeneration

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Eun Jin; Kang, Inn-Kyu [Department of Polymer Science, Kyungpook National University, 1370 Sankyuk-dong, Buk-gu, Daegu 702-701 (Korea, Republic of); Yoon, Suk Joon [Department of Biology, Sookmyung Women' s University, Hyochangwongil 52, Yongsan-gu, Seoul 140-742 (Korea, Republic of); Yeo, Guw-Dong; Pai, Chaul-Min, E-mail: ikkang@knu.ac.k [Samyang Central R and D Center, 63-2 Hwaam-dong, Yusung-gu, Daejeon 305-717 (Korea, Republic of)

    2009-10-15

    A biodegradable polylactic acid (PLA)/poly(glycolide-co-lactide) copolymer (PLGA) membrane with polyglycolic acid (PGA) mesh was prepared to aid the effective regeneration of defective periodontal tissues. The microporous membrane used in this study consists of biodegradable polymers, and seems to have a structure to provide appropriate properties for periodontal tissue regeneration. Based on the albumin permeation test, it is known that the biodegradable membrane exhibits the suitable permeability of nutrients. The membrane maintained its physical integrity for 6-8 weeks, which could be sufficient to retain space in the periodontal pocket. Cell attachment and cytotoxicity tests were performed with respect to the evaluation of biocompatibility of the membrane. As a result, the membrane did not show any cytotoxicity. The safety and therapeutic efficacies of the biodegradable membranes were confirmed in animal tests.

  2. Coordinated Analyses of Mineral-organic Matter Associations in Interplanetary Dust Particles

    Science.gov (United States)

    Nakamura-Messenger, K.; Herzog, G. F.; Smith, T.; Keller, L. P.; Flynn, G. J.; Khodja, H.; Taylor, S.; Wirick, S.; Messenger, S.

    2012-01-01

    Little is known about the timing and processes involved in the incorporation of organic matter with inorganic materials in early Solar System bodies. Recently, X-ray absorption near-edge spectroscopy (XANES) studies showed carbon-rich rims surrounding individual mineral grains in anhydrous IDPs [1,2]. These carbonaceous rims are believed to have formed prior to parent body formation and likely served to bond mineral grains during accretion into larger aggregates. We are exploring the nature of these carbonaceous rims through coordinated analyses of their chemistry, mineralogy, spectroscopy and isotopic characteristics. Here we report our preliminary mineralogical observations.

  3. SYSTEMS BIOLOGY ANALYSES OF GENE EXPRESSION AND GENOME WIDE ASSOCIATION STUDY DATA IN OBSTRUCTIVE SLEEP APNEA

    Science.gov (United States)

    LIU, YU; PATEL, SANJAY; NIBBE, ROD; MAXWELL, SEAN; CHOWDHURY, SALIM A.; KOYUTURK, MEHMET; ZHU, XIAOFENG; LARKIN, EMMA K.; BUXBAUM, SARAH G; PUNJABI, NARESH M.; GHARIB, SINA A.; REDLINE, SUSAN; CHANCE, MARK R.

    2015-01-01

    The precise molecular etiology of obstructive sleep apnea (OSA) is unknown; however recent research indicates that several interconnected aberrant pathways and molecular abnormalities are contributors to OSA. Identifying the genes and pathways associated with OSA can help to expand our understanding of the risk factors for the disease as well as provide new avenues for potential treatment. Towards these goals, we have integrated relevant high dimensional data from various sources, such as genome-wide expression data (microarray), protein-protein interaction (PPI) data and results from genome-wide association studies (GWAS) in order to define sub-network elements that connect some of the known pathways related to the disease as well as define novel regulatory modules related to OSA. Two distinct approaches are applied to identify sub-networks significantly associated with OSA. In the first case we used a biased approach based on sixty genes/proteins with known associations with sleep disorders and/or metabolic disease to seed a search using commercial software to discover networks associated with disease followed by information theoretic (mutual information) scoring of the sub-networks. In the second case we used an unbiased approach and generated an interactome constructed from publicly available gene expression profiles and PPI databases, followed by scoring of the network with p-values from GWAS data derived from OSA patients to uncover sub-networks significant for the disease phenotype. A comparison of the approaches reveals a number of proteins that have been previously known to be associated with OSA or sleep. In addition, our results indicate a novel association of Phosphoinositide 3-kinase, the STAT family of proteins and its related pathways with OSA. PMID:21121029

  4. Differential Expression of Proteins Associated with the Hair Follicle Cycle - Proteomics and Bioinformatics Analyses.

    Directory of Open Access Journals (Sweden)

    Lei Wang

    Full Text Available Hair follicle cycling can be divided into the following three stages: anagen, catagen, and telogen. The molecular signals that orchestrate the follicular transition between phases are still unknown. To better understand the detailed protein networks controlling this process, proteomics and bioinformatics analyses were performed to construct comparative protein profiles of mouse skin at specific time points (0, 8, and 20 days. Ninety-five differentially expressed protein spots were identified by MALDI-TOF/TOF as 44 proteins, which were found to change during hair follicle cycle transition. Proteomics analysis revealed that these changes in protein expression are involved in Ca2+-regulated biological processes, migration, and regulation of signal transduction, among other processes. Subsequently, three proteins were selected to validate the reliability of expression patterns using western blotting. Cluster analysis revealed three expression patterns, and each pattern correlated with specific cell processes that occur during the hair cycle. Furthermore, bioinformatics analysis indicated that the differentially expressed proteins impacted multiple biological networks, after which detailed functional analyses were performed. Taken together, the above data may provide insight into the three stages of mouse hair follicle morphogenesis and provide a solid basis for potential therapeutic molecular targets for this hair disease.

  5. 3-dimensional slope stability analyses using non-associative stress-strain relationships

    Institute of Scientific and Technical Information of China (English)

    CHEN ZuYu; SUN Ping; WANG YuJie; ZHANG HongTao

    2009-01-01

    The research work presented in this paper refers to a new slope stability analysis method used for landslide risk evaluations. It is an extension of the 3-dimensional upper-bound slope stability analysis method proposed by Chen et sl. in 2001, which employs the Mohr-Coulomb's associative flow rule. It has been found that in a 3-dimensional area, a prism may not be able to move at friction angles to all its surrounding interfaces, as required by this associative rule, and convergence problems may occa-sionally arise. The new method establishes two velocity fields: (i) The plastic one that represents a non-associative and the best representative dilation behavior, and (ii) the virtual one that permits the solution for factor of safety in the work and energy balance equation. The new method can then allow any input value of dilation angle and thus solve the convergence problem. A practical application to a concrete dam foundation is illustrated.

  6. Insights from Genome-Wide Association Analyses of Nonalcoholic Fatty Liver Disease

    Science.gov (United States)

    Kahali, Bratati; Halligan, Brian; Speliotes, Elizabeth K.

    2016-01-01

    Nonalcoholic fatty liver disease (NAFLD) is caused by hepatic steatosis, which can progress to nonalcoholic steatohepatitis, fibrosis/cirrhosis, and hepatocellular carcinoma in the absence of excessive alcohol consumption. Nonalcoholic fatty liver disease will become the number one cause of liver disease worldwide by 2020. Nonalcoholic fatty liver disease is correlated albeit imperfectly with obesity and other metabolic diseases such as diabetes, hyperlipidemia, and cardiovascular disease, but exactly how having one of these diseases contributes to the development of other metabolic diseases is only now being elucidated. Development of NAFLD and related metabolic diseases is genetically influenced in the population, and recent genome-wide association studies (GWASs) have discovered genetic variants that associate with these diseases. These GWAS-associated variants cannot only help us to identify individuals at high risk of developing NAFLD, but also to better understand its pathophysiology so that we can develop more effective treatments for this disease and related metabolic diseases in the future. PMID:26676813

  7. Whole brain expression of bipolar disorder associated genes: structural and genetic analyses.

    Directory of Open Access Journals (Sweden)

    Michael J McCarthy

    Full Text Available Studies of bipolar disorder (BD suggest a genetic basis of the illness that alters brain function and morphology. In recent years, a number of genetic variants associated with BD have been identified. However, little is known about the associated genes, or brain circuits that rely upon their function. Using an anatomically comprehensive survey of the human transcriptome (The Allen Brain Atlas, we mapped the expression of 58 genes with suspected involvement in BD based upon their relationship to SNPs identified in genome wide association studies (GWAS. We then conducted a meta-analysis of structural MRI studies to identify brain regions that are abnormal in BD. Of 58 BD associated genes, 22 had anatomically distinct expression patterns that could be categorized into one of three clusters (C1-C3. Brain regions with the highest and lowest expression of these genes did not overlap strongly with anatomical sites identified as abnormal by structural MRI except in the parahippocampal gyrus, the inferior/superior temporal gyrus and the cerebellar vermis, regions where overlap was significant. Using the 22 genes in C1-C3 as reference points, additional genes with correlated expression patterns were identified and organized into sets based on similarity. Further analysis revealed that five of these gene sets were significantly associated with BD, suggesting that anatomical expression profile is correlated with genetic susceptibility to BD, particularly for genes in C2. Our data suggest that expression profiles of BD-associated genes do not explain the majority of structural abnormalities observed in BD, but may be useful in identifying new candidate genes. Our results highlight the complex neuroanatomical basis of BD, and reinforce illness models that emphasize impaired brain connectivity.

  8. Association analyses of depression and genes in the hypothalamus-pituitary-adrenal axis

    DEFF Research Database (Denmark)

    Buttenschøn, Henrietta Nørmølle; Krogh, Jesper; Nielsen, Marit Nyholm;

    2016-01-01

    OBJECTIVE: Dysregulation of the hypothalamic-pituitary-adrenal (HPA) axis has been reported in depression. The aim was to investigate the potential association between depression and seven genes regulating or interfering with the HPA axis, including the gene encoding angiotensin converting enzyme...

  9. Association and mutation analyses of 16p11.2 autism candidate genes.

    Directory of Open Access Journals (Sweden)

    Ravinesh A Kumar

    Full Text Available BACKGROUND: Autism is a complex childhood neurodevelopmental disorder with a strong genetic basis. Microdeletion or duplication of a approximately 500-700-kb genomic rearrangement on 16p11.2 that contains 24 genes represents the second most frequent chromosomal disorder associated with autism. The role of common and rare 16p11.2 sequence variants in autism etiology is unknown. METHODOLOGY/PRINCIPAL FINDINGS: To identify common 16p11.2 variants with a potential role in autism, we performed association studies using existing data generated from three microarray platforms: Affymetrix 5.0 (777 families, Illumina 550 K (943 families, and Affymetrix 500 K (60 families. No common variants were identified that were significantly associated with autism. To look for rare variants, we performed resequencing of coding and promoter regions for eight candidate genes selected based on their known expression patterns and functions. In total, we identified 26 novel variants in autism: 13 exonic (nine non-synonymous, three synonymous, and one untranslated region and 13 promoter variants. We found a significant association between autism and a coding variant in the seizure-related gene SEZ6L2 (12/1106 autism vs. 3/1161 controls; p = 0.018. Sez6l2 expression in mouse embryos was restricted to the spinal cord and brain. SEZ6L2 expression in human fetal brain was highest in post-mitotic cortical layers, hippocampus, amygdala, and thalamus. Association analysis of SEZ6L2 in an independent sample set failed to replicate our initial findings. CONCLUSIONS/SIGNIFICANCE: We have identified sequence variation in at least one candidate gene in 16p11.2 that may represent a novel genetic risk factor for autism. However, further studies are required to substantiate these preliminary findings.

  10. A Study of the Oxidation Behaviour of Pile Grade A (PGA) Nuclear Graphite Using Thermogravimetric Analysis (TGA), Scanning Electron Microscopy (SEM) and X-Ray Tomography (XRT).

    Science.gov (United States)

    Payne, Liam; Heard, Peter J; Scott, Thomas B

    2015-01-01

    Pile grade A (PGA) graphite was used as a material for moderating and reflecting neutrons in the UK's first generation Magnox nuclear power reactors. As all but one of these reactors are now shut down there is a need to understand the residual state of the material prior to decommissioning of the cores, in particular the location and concentration of key radio-contaminants such as 14C. The oxidation behaviour of unirradiated PGA graphite was studied, in the temperature range 600-1050°C, in air and nitrogen using thermogravimetric analysis, scanning electron microscopy and X-ray tomography to investigate the possibility of using thermal degradation techniques to examine 14C distribution within irradiated material. The thermal decomposition of PGA graphite was observed to follow the three oxidation regimes historically identified by previous workers with limited, uniform oxidation at temperatures below 600°C and substantial, external oxidation at higher temperatures. This work demonstrates that the different oxidation regimes of PGA graphite could be developed into a methodology to characterise the distribution and concentration of 14C in irradiated graphite by thermal treatment. PMID:26575374

  11. A Study of the Oxidation Behaviour of Pile Grade A (PGA Nuclear Graphite Using Thermogravimetric Analysis (TGA, Scanning Electron Microscopy (SEM and X-Ray Tomography (XRT.

    Directory of Open Access Journals (Sweden)

    Liam Payne

    Full Text Available Pile grade A (PGA graphite was used as a material for moderating and reflecting neutrons in the UK's first generation Magnox nuclear power reactors. As all but one of these reactors are now shut down there is a need to understand the residual state of the material prior to decommissioning of the cores, in particular the location and concentration of key radio-contaminants such as 14C. The oxidation behaviour of unirradiated PGA graphite was studied, in the temperature range 600-1050°C, in air and nitrogen using thermogravimetric analysis, scanning electron microscopy and X-ray tomography to investigate the possibility of using thermal degradation techniques to examine 14C distribution within irradiated material. The thermal decomposition of PGA graphite was observed to follow the three oxidation regimes historically identified by previous workers with limited, uniform oxidation at temperatures below 600°C and substantial, external oxidation at higher temperatures. This work demonstrates that the different oxidation regimes of PGA graphite could be developed into a methodology to characterise the distribution and concentration of 14C in irradiated graphite by thermal treatment.

  12. SHEsis, a powerful software platform for analyses of linkage disequilibrium, haplotype construction, and genetic association at polymorphism loci

    Institute of Scientific and Technical Information of China (English)

    Yong Yong SHI; Lin HE

    2005-01-01

    In multiloci-based genetic association studies of complex diseases, a powerful and high efficient tool for analyses of linkage disequilibrium (LD) between markers, haplotype distributions and many chi-square/p values with a large number of samples has been sought for long. In order to achieve the goal of obtaining meaningful results directly from raw data,we developed a robust and user-friendly software platform with a series of tools for analysis in association study with high efficiency. The platform has been well evaluated by several sets of real data.

  13. Chemical analyses of wasp-associated streptomyces bacteria reveal a prolific potential for natural products discovery

    DEFF Research Database (Denmark)

    Poulsen, Michael; Oh, Dong-Chan; Clardy, Jon;

    2011-01-01

    Identifying new sources for small molecule discovery is necessary to help mitigate the continuous emergence of antibiotic-resistance in pathogenic microbes. Recent studies indicate that one potentially rich source of novel natural products is Actinobacterial symbionts associated with social...... of these isolates identified 11 distinct and structurally diverse secondary metabolites, including a novel polyunsaturated and polyoxygenated macrocyclic lactam, which we name sceliphrolactam. By pairing the 15 Streptomyces strains against a collection of fungi and bacteria, we document their antifungal...... and antibacterial activity. The prevalence and anti-microbial properties of Actinobacteria associated with these two solitary wasp species suggest the potential role of these Streptomyces as antibiotic-producing symbionts, potentially helping defend their wasp hosts from pathogenic microbes. Finding...

  14. Optimised procedure to analyse maillard reaction-associated fluorescence in cereal-based products

    OpenAIRE

    Delgado Andrade, Cristina; Rufián Henares, J. A.; Morales, F. J.

    2008-01-01

    Fluorescent Maillard compounds measurement provides more specific information on the extent of the Maillard reaction than other unspecific tools to monitor the reaction, and is suitable, as the first approach, to assess the nutritional quality of foods as related to protein damage. This work presents an optimised laboratory procedure for the measurement of total fluorescent intermediate compounds (FIC) associated with Maillard reaction, described and evaluated in a cereal-based product. Total...

  15. Association analyses identify six new psoriasis susceptibility loci in the Chinese population

    OpenAIRE

    Sun, Liang-Dan; Cheng, Hui; Wang, Zai-Xing; Zhang, An-Ping; Wang, Pei-Guang; Xu, Jin-Hua; Zhu, Qi-Xing; Zhou, Hai-Sheng; Buchert, Eva; Zhang, Fu-Ren; Pu, Xiong-Ming; Yang, Xue-Qin; Zhang, Jian-Zhong; Xu, Ai-E; Wu, Ri-Na

    2010-01-01

    We extended our previous GWAS for psoriasis with a a multistage replication study including 8,312 cases and 12,919 controls from China as well as 3,293 cases, 4,188 controls from Germany and the USA, and 254 nuclear families from the USA. We identified 6 new susceptibility loci associated to psoriasis in Chinese, containing candidate genes ERAP1, PTTG1, CSMD1, GJB2, SERPINB8, ZNF816A (PCombined

  16. Genome-wide association analyses for fatty acid composition in porcine muscle and abdominal fat tissues.

    Directory of Open Access Journals (Sweden)

    Bin Yang

    Full Text Available Fatty acid composition is an important phenotypic trait in pigs as it affects nutritional, technical and sensory quality of pork. Here, we reported a genome-wide association study (GWAS for fatty acid composition in the longissimus muscle and abdominal fat tissues of 591 White Duroc×Erhualian F2 animals and in muscle samples of 282 Chinese Sutai pigs. A total of 46 loci surpassing the suggestive significance level were identified on 15 pig chromosomes (SSC for 12 fatty acids, revealing the complex genetic architecture of fatty acid composition in pigs. Of the 46 loci, 15 on SSC5, 7, 14 and 16 reached the genome-wide significance level. The two most significant SNPs were ss131535508 (P = 2.48×10(-25 at 41.39 Mb on SSC16 for C20∶0 in abdominal fat and ss478935891 (P = 3.29×10(-13 at 121.31 Mb on SSC14 for muscle C18∶0. A meta-analysis of GWAS identified 4 novel loci and enhanced the association strength at 6 loci compared to those evidenced in a single population, suggesting the presence of common underlying variants. The longissimus muscle and abdominal fat showed consistent association profiles at most of the identified loci and distinct association signals at several loci. All loci have specific effects on fatty acid composition, except for two loci on SSC4 and SSC7 affecting multiple fatness traits. Several promising candidate genes were found in the neighboring regions of the lead SNPs at the genome-wide significant loci, such as SCD for C18∶0 and C16∶1 on SSC14 and ELOVL7 for C20∶0 on SSC16. The findings provide insights into the molecular basis of fatty acid composition in pigs, and would benefit the final identification of the underlying mutations.

  17. 3-dimensional slope stability analyses using non-associative stress-strain relationships

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    The research work presented in this paper refers to a new slope stability analysis method used for landslide risk evaluations. It is an extension of the 3-dimensional upper-bound slope stability analysis method proposed by Chen et al. in 2001,which employs the Mohr-Coulomb’s associative flow rule. It has been found that in a 3-dimensional area,a prism may not be able to move at friction angles to all its surrounding interfaces,as required by this associative rule,and convergence problems may occasionally arise. The new method establishes two velocity fields:(i) The plastic one that represents a non-associative and the best representative dilation behavior,and (ii) the virtual one that permits the solution for factor of safety in the work and energy balance equation. The new method can then allow any input value of dilation angle and thus solve the convergence problem. A practical application to a concrete dam foundation is illustrated.

  18. Refining analyses of copy number variation identifies specific genes associated with developmental delay.

    Science.gov (United States)

    Coe, Bradley P; Witherspoon, Kali; Rosenfeld, Jill A; van Bon, Bregje W M; Vulto-van Silfhout, Anneke T; Bosco, Paolo; Friend, Kathryn L; Baker, Carl; Buono, Serafino; Vissers, Lisenka E L M; Schuurs-Hoeijmakers, Janneke H; Hoischen, Alex; Pfundt, Rolph; Krumm, Nik; Carvill, Gemma L; Li, Deana; Amaral, David; Brown, Natasha; Lockhart, Paul J; Scheffer, Ingrid E; Alberti, Antonino; Shaw, Marie; Pettinato, Rosa; Tervo, Raymond; de Leeuw, Nicole; Reijnders, Margot R F; Torchia, Beth S; Peeters, Hilde; O'Roak, Brian J; Fichera, Marco; Hehir-Kwa, Jayne Y; Shendure, Jay; Mefford, Heather C; Haan, Eric; Gécz, Jozef; de Vries, Bert B A; Romano, Corrado; Eichler, Evan E

    2014-10-01

    Copy number variants (CNVs) are associated with many neurocognitive disorders; however, these events are typically large, and the underlying causative genes are unclear. We created an expanded CNV morbidity map from 29,085 children with developmental delay in comparison to 19,584 healthy controls, identifying 70 significant CNVs. We resequenced 26 candidate genes in 4,716 additional cases with developmental delay or autism and 2,193 controls. An integrated analysis of CNV and single-nucleotide variant (SNV) data pinpointed 10 genes enriched for putative loss of function. Follow-up of a subset of affected individuals identified new clinical subtypes of pediatric disease and the genes responsible for disease-associated CNVs. These genetic changes include haploinsufficiency of SETBP1 associated with intellectual disability and loss of expressive language and truncations of ZMYND11 in individuals with autism, aggression and complex neuropsychiatric features. This combined CNV and SNV approach facilitates the rapid discovery of new syndromes and genes involved in neuropsychiatric disease despite extensive genetic heterogeneity. PMID:25217958

  19. Cystatin C and Risk of Diabetes and the Metabolic Syndrome - Biomarker and Genotype Association Analyses.

    Directory of Open Access Journals (Sweden)

    Martin Magnusson

    Full Text Available We recently reported a relationship between plasma levels of cystatin C and incidence of the metabolic syndrome (MetS among the first 2,369 subjects who participated in the re-examination study of the population-based Malmö and Diet Cancer Cardiovascular cohort (MDC-CC-re-exam. In this study we aimed to replicate these results and also investigate if cystatin C was causally associated with MetS and diabetes.We estimated the effect size of the strongest GWAS derived cystatin C SNP (major allele of rs13038305 on plasma cystatin C in the now completed MDC-CC-re-exam (n = 3,734 and thereafter examined the association between plasma cystatin C (403 cases of diabetes and 2665 controls as well as rs13038305 (235 cases and 2425 controls with incident diabetes. The association of rs13038305 and incident MetS (511 cases of MetS and 1980 controls was similarly investigated in the whole MDC-CC-re-exam. We also attempted to replicate our previously shown association of cystatin C with incident MetS in subjects from the MDC-CC-re-exam (147 cases and 711 controls that were not included in our previous report.In the entire MDC-CC-re-exam, each copy of the major allele of rs13038305 was associated with approximately 0.30 standard deviation (SD higher plasma concentration of cystatin C (β = 0.33, p = 4.2E-28 in age and sex adjusted analysis. Cystatin C in plasma was not associated with incident diabetes after adjustment for known diabetes risk factors (OR per 1 SD increment 0.99 (0.86-1.13, p = 0.842. In the replication cohort of MDC-CC-re-exam, the OR (95% CI for incident MetS in subjects belonging to quartiles 1, 2, 3 and 4 of plasma cystatin C levels was 1.00 (reference, 1.21 (0.70-2.07, 1.62 (0.95-2.78 and 1.72 (1.01-2.93 (ptrend = 0.026 in age and sex adjusted analysis. In the entire MDC-CC-re-exam the odds ratio for incident MetS and diabetes per copy of the major rs13038305 allele was 1.13, (0.95-1.34, p = 0.160 and 1.07, 95% CI 0.89-1.30, p = 0

  20. Genome-wide association analyses identify SPOCK as a key novel gene underlying age at menarche.

    Directory of Open Access Journals (Sweden)

    Yao-Zhong Liu

    2009-03-01

    Full Text Available For females, menarche is a most significant physiological event. Age at menarche (AAM is a trait with high genetic determination and is associated with major complex diseases in women. However, specific genes for AAM variation are largely unknown. To identify genetic factors underlying AAM variation, a genome-wide association study (GWAS examining about 380,000 SNPs was conducted in 477 Caucasian women. A follow-up replication study was performed to validate our major GWAS findings using two independent Caucasian cohorts with 854 siblings and 762 unrelated subjects, respectively, and one Chinese cohort of 1,387 unrelated subjects--all females. Our GWAS identified a novel gene, SPOCK (Sparc/Osteonectin, CWCV, and Kazal-like domains proteoglycan, which had seven SNPs associated with AAM with genome-wide false discovery rate (FDR q<0.05. Six most significant SNPs of the gene were selected for validation in three independent replication cohorts. All of the six SNPs were replicated in at least one cohort. In particular, SNPs rs13357391 and rs1859345 were replicated both within and across different ethnic groups in all three cohorts, with p values of 5.09 x 10(-3 and 4.37 x 10(-3, respectively, in the Chinese cohort and combined p values (obtained by Fisher's method of 5.19 x 10(-5 and 1.02 x 10(-4, respectively, in all three replication cohorts. Interestingly, SPOCK can inhibit activation of MMP-2 (matrix metalloproteinase-2, a key factor promoting endometrial menstrual breakdown and onset of menstrual bleeding. Our findings, together with the functional relevance, strongly supported that the SPOCK gene underlies variation of AAM.

  1. In vitro functional analyses of arrhythmogenic right ventricular cardiomyopathy-associated desmoglein-2-missense variations.

    Directory of Open Access Journals (Sweden)

    Anna Gaertner

    Full Text Available BACKGROUND: Although numerous sequence variants in desmoglein-2 (DSG2 have been associated with arrhythmogenic right ventricular cardiomyopathy (ARVC, the functional impact of new sequence variations is difficult to estimate. METHODOLOGY/PRINCIPAL FINDINGS: To test the functional consequences of DSG2-variants, we established an expression system for the extracellular domain and the full-length DSG2 using the human cell line HT1080. We established new tools to investigate ARVC-associated DSG2 variations and compared wild-type proteins and proteins with one of the five selected variations (DSG2-p.R46Q, -p.D154E, -p.D187G, -p.K294E, -p.V392I with respect to prodomain cleavage, adhesion properties and cellular localisation. CONCLUSIONS/SIGNIFICANCE: The ARVC-associated DSG2-p.R46Q variation was predicted to be probably damaging by bioinformatics tools and to concern a conserved proprotein convertase cleavage site. In this study an impaired prodomain cleavage and an influence on the DSG2-properties could be demonstrated for the R46Q-variant leading to the classification of the variant as a potential gain-of-function mutant. In contrast, the variants DSG2-p.K294E and -p.V392I, which have an arguable impact on ARVC pathogenesis and are predicted to be benign, did not show functional differences to the wild-type protein in our study. Notably, the variants DSG2-p.D154E and -p.D187G, which were predicted to be damaging by bioinformatics tools, had no detectable effects on the DSG2 protein properties in our study.

  2. In Vitro Functional Analyses of Arrhythmogenic Right Ventricular Cardiomyopathy-Associated Desmoglein-2-Missense Variations

    Science.gov (United States)

    Gaertner, Anna; Klauke, Baerbel; Stork, Ines; Niehaus, Karsten; Niemann, Gesa; Gummert, Jan; Milting, Hendrik

    2012-01-01

    Background Although numerous sequence variants in desmoglein-2 (DSG2) have been associated with arrhythmogenic right ventricular cardiomyopathy (ARVC), the functional impact of new sequence variations is difficult to estimate. Methodology/Principal Findings To test the functional consequences of DSG2-variants, we established an expression system for the extracellular domain and the full-length DSG2 using the human cell line HT1080. We established new tools to investigate ARVC-associated DSG2 variations and compared wild-type proteins and proteins with one of the five selected variations (DSG2-p.R46Q, -p.D154E, -p.D187G, -p.K294E, -p.V392I) with respect to prodomain cleavage, adhesion properties and cellular localisation. Conclusions/Significance The ARVC-associated DSG2-p.R46Q variation was predicted to be probably damaging by bioinformatics tools and to concern a conserved proprotein convertase cleavage site. In this study an impaired prodomain cleavage and an influence on the DSG2-properties could be demonstrated for the R46Q-variant leading to the classification of the variant as a potential gain-of-function mutant. In contrast, the variants DSG2-p.K294E and -p.V392I, which have an arguable impact on ARVC pathogenesis and are predicted to be benign, did not show functional differences to the wild-type protein in our study. Notably, the variants DSG2-p.D154E and -p.D187G, which were predicted to be damaging by bioinformatics tools, had no detectable effects on the DSG2 protein properties in our study. PMID:23071725

  3. Systems genetics of obesity in an F2 pig model by genome-wide association, genetic network and pathway analyses

    Directory of Open Access Journals (Sweden)

    Lisette J. A. Kogelman

    2014-07-01

    Full Text Available Obesity is a complex condition with world-wide exponentially rising prevalence rates, linked with severe diseases like Type 2 Diabetes. Economic and welfare consequences have led to a raised interest in a better understanding of the biological and genetic background. To date, whole genome investigations focusing on single genetic variants have achieved limited success, and the importance of including genetic interactions is becoming evident. Here, the aim was to perform an integrative genomic analysis in an F2 pig resource population that was constructed with an aim to maximize genetic variation of obesity-related phenotypes and genotyped using the 60K SNP chip. Firstly, Genome Wide Association (GWA analysis was performed on the Obesity Index to locate candidate genomic regions that were further validated using combined Linkage Disequilibrium Linkage Analysis and investigated by evaluation of haplotype blocks. We built Weighted Interaction SNP Hub (WISH and differentially wired (DW networks using genotypic correlations amongst obesity-associated SNPs resulting from GWA analysis. GWA results and SNP modules detected by WISH and DW analyses were further investigated by functional enrichment analyses. The functional annotation of SNPs revealed several genes associated with obesity, e.g. NPC2 and OR4D10. Moreover, gene enrichment analyses identified several significantly associated pathways, over and above the GWA study results, that may influence obesity and obesity related diseases, e.g. metabolic processes. WISH networks based on genotypic correlations allowed further identification of various gene ontology terms and pathways related to obesity and related traits, which were not identified by the GWA study. In conclusion, this is the first study to develop a (genetic obesity index and employ systems genetics in a porcine model to provide important insights into the complex genetic architecture associated with obesity and many biological pathways

  4. Association and interaction analyses of eight genes under asthma linkage peaks

    DEFF Research Database (Denmark)

    Ferreira, M A R; Zhao, Z Z; Thomsen, S F;

    2009-01-01

    BACKGROUND: Linkage studies have implicated the 2q33, 9p21, 11q13 and 20q13 regions in the regulation of allergic disease. The aim of this study was to test genetic variants in candidate genes from these regions for association with specific asthma traits. METHODS: Ninety-five single nucleotide...... polymorphisms (SNP) located in eight genes (CD28, CTLA4, ICOS, ADAM23, ADAMTSL1, MS4A2, CDH26 and HRH3) were genotyped in >5000 individuals from Australian (n = 1162), Dutch (n = 99) and Danish (n = 303) families. Traits tested included doctor-diagnosed asthma, atopy, airway obstruction, total serum...

  5. ASSOCIATION ANALYSES OF ADRENERGIC RECEPTOR POLYMORPHISMS WITH OBESITY AND METABOLIC ALTERATIONS

    OpenAIRE

    Lima, John J.; Feng, Hua; Duckworth, Laurie; Wang, Jianwei; Sylvester, James E.; Kissoon, Niranjan; Garg, Hardesh

    2007-01-01

    Genes involved in the regulation of catecholamine function may be important in obesity because of the role catecholamines play in energy expenditure and lipolysis. To determine if common single nucleotide polymorphisms (SNPs) in β1 (ADRB1), β2 (ADRB2), β3 (ADRB3) and α2a adrenergic receptor (ADRA2A) genes associate with obesity and metabolic alterations, we recruited 74 healthy African American and 161 Caucasian males and females (age: 18–49y) to participate in this case-control genetic assoc...

  6. Converging findings from linkage and association analyses on susceptibility genes for smoking and other addictions.

    Science.gov (United States)

    Yang, J; Li, M D

    2016-08-01

    Experimental approaches to genetic studies of complex traits evolve with technological advances. How do discoveries using different approaches advance our knowledge of the genetic architecture underlying complex diseases/traits? Do most of the findings of newer techniques, such as genome-wide association study (GWAS), provide more information than older ones, for example, genome-wide linkage study? In this review, we address these issues by developing a nicotine dependence (ND) genetic susceptibility map based on the results obtained by the approaches commonly used in recent years, namely, genome-wide linkage, candidate gene association, GWAS and targeted sequencing. Converging and diverging results from these empirical approaches have elucidated a preliminary genetic architecture of this intractable psychiatric disorder and yielded new hypotheses on ND etiology. The insights we obtained by putting together results from diverse approaches can be applied to other complex diseases/traits. In sum, developing a genetic susceptibility map and keeping it updated are effective ways to keep track of what we know about a disease/trait and what the next steps may be with new approaches. PMID:27166759

  7. An approach to analyse the specific impact of rapamycin on mRNA-ribosome association

    Directory of Open Access Journals (Sweden)

    Jaquier-Gubler Pascale

    2008-08-01

    Full Text Available Abstract Background Recent work, using both cell culture model systems and tumour derived cell lines, suggests that the differential recruitment into polysomes of mRNA populations may be sufficient to initiate and maintain tumour formation. Consequently, a major effort is underway to use high density microarray profiles to establish molecular fingerprints for cells exposed to defined drug regimes. The aim of these pharmacogenomic approaches is to provide new information on how drugs can impact on the translational read-out within a defined cellular background. Methods We describe an approach that permits the analysis of de-novo mRNA-ribosome association in-vivo during short drug exposures. It combines hypertonic shock, polysome fractionation and high-throughput analysis to provide a molecular phenotype of translationally responsive transcripts. Compared to previous translational profiling studies, the procedure offers increased specificity due to the elimination of the drugs secondary effects (e.g. on the transcriptional read-out. For this pilot "proof-of-principle" assay we selected the drug rapamycin because of its extensively studied impact on translation initiation. Results High throughput analysis on both the light and heavy polysomal fractions has identified mRNAs whose re-recruitment onto free ribosomes responded to short exposure to the drug rapamycin. The results of the microarray have been confirmed using real-time RT-PCR. The selective down-regulation of TOP transcripts is also consistent with previous translational profiling studies using this drug. Conclusion The technical advance outlined in this manuscript offers the possibility of new insights into mRNA features that impact on translation initiation and provides a molecular fingerprint for transcript-ribosome association in any cell type and in the presence of a range of drugs of interest. Such molecular phenotypes defined pre-clinically may ultimately impact on the evaluation of

  8. Mouse and Human Genetic Analyses Associate Kalirin with Ventral Striatal Activation during Impulsivity and with Alcohol Misuse.

    Science.gov (United States)

    Peña-Oliver, Yolanda; Carvalho, Fabiana M; Sanchez-Roige, Sandra; Quinlan, Erin B; Jia, Tianye; Walker-Tilley, Tom; Rulten, Stuart L; Pearl, Frances M G; Banaschewski, Tobias; Barker, Gareth J; Bokde, Arun L W; Büchel, Christian; Conrod, Patricia J; Flor, Herta; Gallinat, Jürgen; Garavan, Hugh; Heinz, Andreas; Gowland, Penny; Paillere Martinot, Marie-Laure; Paus, Tomáš; Rietschel, Marcella; Robbins, Trevor W; Smolka, Michael N; Schumann, Gunter; Stephens, David N

    2016-01-01

    Impulsivity is associated with a spectrum of psychiatric disorders including drug addiction. To investigate genetic associations with impulsivity and initiation of drug taking, we took a two-step approach. First, we identified genes whose expression level in prefrontal cortex, striatum and accumbens were associated with impulsive behavior in the 5-choice serial reaction time task across 10 BXD recombinant inbred (BXD RI) mouse strains and their progenitor C57BL/6J and DBA2/J strains. Behavioral data were correlated with regional gene expression using GeneNetwork (www.genenetwork.org), to identify 44 genes whose probability of association with impulsivity exceeded a false discovery rate of < 0.05. We then interrogated the IMAGEN database of 1423 adolescents for potential associations of SNPs in human homologs of those genes identified in the mouse study, with brain activation during impulsive performance in the Monetary Incentive Delay task, and with novelty seeking scores from the Temperament and Character Inventory, as well as alcohol experience. There was a significant overall association between the human homologs of impulsivity-related genes and percentage of premature responses in the MID task and with fMRI BOLD-response in ventral striatum (VS) during reward anticipation. In contrast, no significant association was found between the polygenic scores and anterior cingulate cortex activation. Univariate association analyses revealed that the G allele (major) of the intronic SNP rs6438839 in the KALRN gene was significantly associated with increased VS activation. Additionally, the A-allele (minor) of KALRN intronic SNP rs4634050, belonging to the same haplotype block, was associated with increased frequency of binge drinking. PMID:27092175

  9. Mouse and human genetic analyses associate kalirin with ventral striatal activation during impulsivity and with alcohol misuse

    Directory of Open Access Journals (Sweden)

    Yolanda ePeña-Oliver

    2016-04-01

    Full Text Available Impulsivity is associated with a spectrum of psychiatric disorders including drug addiction. To investigate genetic associations with impulsivity and initiation of drug taking, we took a two-step approach. First, we identified genes whose expression level in prefrontal cortex, striatum and accumbens were associated with impulsive behaviour in the 5-choice serial reaction time task across 10 BXD recombinant inbred (BXD RI mouse strains and their progenitor C57BL/6J and DBA2/J strains. Behavioural data were correlated with regional gene expression using GeneNetwork (www.genenetwork.org, to identify 44 genes whose probability of association with impulsivity exceeded a false discovery rate of <0.05. We then interrogated the IMAGEN database of 1423 adolescents for potential associations of SNPs in human homologues of those genes identified in the mouse study, with brain activation during impulsive performance in the Monetary Incentive Delay task, and with novelty seeking scores from the Temperament and Character Inventory, as well as alcohol-experience. There was a significant overall association between the human homologues of impulsivity-related genes and percentage of premature responses in the MID task and with fMRI BOLD-response in ventral striatum (VS during reward anticipation. In contrast, no significant association was found between the polygenic scores and anterior cingulate cortex activation. Univariate association analyses revealed that the G allele (major of the intronic SNP rs6438839 in the KALRN gene was significantly associated with increased VS activation. Additionally, the A-allele (minor of KALRN intronic SNP rs4634050, belonging to the same haplotype block, was associated with increased frequency of binge drinking.

  10. Association of HLA-DQA1 and -DQB1 alleles with type I diabetes in Arabs: a meta-analyses.

    Science.gov (United States)

    Hamzeh, A R; Nair, P; Al-Khaja, N; Al Ali, M T

    2015-07-01

    This study aimed at assessing the nature and significance of associations between various alleles of HLA-DQA1, HLA-DQB1, and type I diabetes (T1D) in Arab populations. Evidence from literature (published before 20 April 2015) was amassed and analysed through multiple meta-analyses, which yielded effect summary odds ratios and 95% confidence intervals for 24 alleles and 4 haplotypes. A total of 1273 cases and 1747 controls from 16 studies were analysed. High levels of significance were obtained to support higher T1D risk when harbouring DQA1*03:01. The alleles DQB1*02:01 and *03:02 and the haplotypes DR3 and DR4 were significant risk factors, albeit with high publication heterogeneity. The protective effects of DQA1*01:01, DQB1*05:03, *06:02, *06:03, and *06:04 were robustly suggested by all indicators of meta-analyses. The haplotypes DR7 and DR11 were strongly suggested to be protective in Arabs. A relatively small number of studies have emerged from Arab countries, mostly with inadequate power on an individual basis. This study fills the gap by providing significant size effect of human leukocyte antigen (HLA) alleles and completes the continuum of global ethnic differences in this context.

  11. Genetic variants associated with subjective well-being, depressive symptoms and neuroticism identified through genome-wide analyses

    Science.gov (United States)

    Okbay, Aysu; Baselmans, Bart M.L.; De Neve, Jan-Emmanuel; Turley, Patrick; Nivard, Michel G.; Fontana, Mark Alan; Meddens, S. Fleur W.; Linnér, Richard Karlsson; Rietveld, Cornelius A.; Derringer, Jaime; Gratten, Jacob; Lee, James J.; Liu, Jimmy Z.; de Vlaming, Ronald; Ahluwalia, Tarunveer S.; Buchwald, Jadwiga; Cavadino, Alana; Frazier-Wood, Alexis C.; Furlotte, Nicholas A.; Garfield, Victoria; Geisel, Marie Henrike; Gonzalez, Juan R.; Haitjema, Saskia; Karlsson, Robert; van der Laan, Sander W.; Ladwig, Karl-Heinz; Lahti, Jari; van der Lee, Sven J.; Lind, Penelope A.; Liu, Tian; Matteson, Lindsay; Mihailov, Evelin; Miller, Michael B.; Minica, Camelia C.; Nolte, Ilja M.; Mook-Kanamori, Dennis; van der Most, Peter J.; Oldmeadow, Christopher; Qian, Yong; Raitakari, Olli; Rawal, Rajesh; Realo, Anu; Rueedi, Rico; Schmidt, Börge; Smith, Albert V.; Stergiakouli, Evie; Tanaka, Toshiko; Taylor, Kent; Wedenoja, Juho; Wellmann, Juergen; Westra, Harm-Jan; Willems, Sara M.; Zhao, Wei; Amin, Najaf; Bakshi, Andrew; Boyle, Patricia A.; Cherney, Samantha; Cox, Simon R.; Davies, Gail; Davis, Oliver S.P.; Ding, Jun; Direk, Nese; Eibich, Peter; Emeny, Rebecca T.; Fatemifar, Ghazaleh; Faul, Jessica D.; Ferrucci, Luigi; Forstner, Andreas; Gieger, Christian; Gupta, Richa; Harris, Tamara B.; Harris, Juliette M.; Holliday, Elizabeth G.; Hottenga, Jouke-Jan; De Jager, Philip L.; Kaakinen, Marika A.; Kajantie, Eero; Karhunen, Ville; Kolcic, Ivana; Kumari, Meena; Launer, Lenore J.; Franke, Lude; Li-Gao, Ruifang; Koini, Marisa; Loukola, Anu; Marques-Vidal, Pedro; Montgomery, Grant W.; Mosing, Miriam A.; Paternoster, Lavinia; Pattie, Alison; Petrovic, Katja E.; Pulkki-Råback, Laura; Quaye, Lydia; Räikkönen, Katri; Rudan, Igor; Scott, Rodney J.; Smith, Jennifer A.; Sutin, Angelina R.; Trzaskowski, Maciej; Vinkhuyzen, Anna E.; Yu, Lei; Zabaneh, Delilah; Attia, John R.; Bennett, David A.; Berger, Klaus; Bertram, Lars; Boomsma, Dorret I.; Snieder, Harold; Chang, Shun-Chiao; Cucca, Francesco; Deary, Ian J.; van Duijn, Cornelia M.; Eriksson, Johan G.; Bültmann, Ute; de Geus, Eco J.C.; Groenen, Patrick J.F.; Gudnason, Vilmundur; Hansen, Torben; Hartman, Catharine A.; Haworth, Claire M.A.; Hayward, Caroline; Heath, Andrew C.; Hinds, David A.; Hyppönen, Elina; Iacono, William G.; Järvelin, Marjo-Riitta; Jöckel, Karl-Heinz; Kaprio, Jaakko; Kardia, Sharon L.R.; Keltikangas-Järvinen, Liisa; Kraft, Peter; Kubzansky, Laura D.; Lehtimäki, Terho; Magnusson, Patrik K.E.; Martin, Nicholas G.; McGue, Matt; Metspalu, Andres; Mills, Melinda; de Mutsert, Renée; Oldehinkel, Albertine J.; Pasterkamp, Gerard; Pedersen, Nancy L.; Plomin, Robert; Polasek, Ozren; Power, Christine; Rich, Stephen S.; Rosendaal, Frits R.; den Ruijter, Hester M.; Schlessinger, David; Schmidt, Helena; Svento, Rauli; Schmidt, Reinhold; Alizadeh, Behrooz Z.; Sørensen, Thorkild I.A.; Spector, Tim D.; Steptoe, Andrew; Terracciano, Antonio; Thurik, A. Roy; Timpson, Nicholas J.; Tiemeier, Henning; Uitterlinden, André G.; Vollenweider, Peter; Wagner, Gert G.; Weir, David R.; Yang, Jian; Conley, Dalton C.; Smith, George Davey; Hofman, Albert; Johannesson, Magnus; Laibson, David I.; Medland, Sarah E.; Meyer, Michelle N.; Pickrell, Joseph K.; Esko, Tõnu; Krueger, Robert F.; Beauchamp, Jonathan P.; Koellinger, Philipp D.; Benjamin, Daniel J.; Bartels, Meike; Cesarini, David

    2016-01-01

    We conducted genome-wide association studies of three phenotypes: subjective well-being (N = 298,420), depressive symptoms (N = 161,460), and neuroticism (N = 170,910). We identified three variants associated with subjective well-being, two with depressive symptoms, and eleven with neuroticism, including two inversion polymorphisms. The two depressive symptoms loci replicate in an independent depression sample. Joint analyses that exploit the high genetic correlations between the phenotypes (|ρ̂| ≈ 0.8) strengthen the overall credibility of the findings, and allow us to identify additional variants. Across our phenotypes, loci regulating expression in central nervous system and adrenal/pancreas tissues are strongly enriched for association. PMID:27089181

  12. BioSMACK: a linux live CD for genome-wide association analyses.

    Science.gov (United States)

    Hong, Chang Bum; Kim, Young Jin; Moon, Sanghoon; Shin, Young-Ah; Go, Min Jin; Kim, Dong-Joon; Lee, Jong-Young; Cho, Yoon Shin

    2012-01-01

    Recent advances in high-throughput genotyping technologies have enabled us to conduct a genome-wide association study (GWAS) on a large cohort. However, analyzing millions of single nucleotide polymorphisms (SNPs) is still a difficult task for researchers conducting a GWAS. Several difficulties such as compatibilities and dependencies are often encountered by researchers using analytical tools, during the installation of software. This is a huge obstacle to any research institute without computing facilities and specialists. Therefore, a proper research environment is an urgent need for researchers working on GWAS. We developed BioSMACK to provide a research environment for GWAS that requires no configuration and is easy to use. BioSMACK is based on the Ubuntu Live CD that offers a complete Linux-based operating system environment without installation. Moreover, we provide users with a GWAS manual consisting of a series of guidelines for GWAS and useful examples. BioSMACK is freely available at http://ksnp.cdc. go.kr/biosmack.

  13. Assessing the association between homocysteine and cognition: reflections on Bradford Hill, meta-analyses, and causality.

    Science.gov (United States)

    McCaddon, Andrew; Miller, Joshua W

    2015-10-01

    Hyperhomocysteinemia is a recognized risk factor for cognitive decline and incident dementia in older adults. Two recent reports addressed the cumulative epidemiological evidence for this association but expressed conflicting opinions. Here, the evidence is reviewed in relation to Sir Austin Bradford Hill's criteria for assessing "causality," and the latest meta-analysis of the effects of homocysteine-lowering on cognitive function is critically examined. The meta-analysis included 11 trials, collectively assessing 22,000 individuals, that examined the effects of B vitamin supplements (folic acid, vitamin B12, vitamin B6) on global or domain-specific cognitive decline. It concluded that homocysteine-lowering with B vitamin supplements has no significant effect on cognitive function. However, careful examination of the trials in the meta-analysis indicates that no conclusion can be made regarding the effects of homocysteine-lowering on cognitive decline, since the trials typically did not include individuals who were experiencing such decline. Further definitive trials in older adults experiencing cognitive decline are still urgently needed. PMID:26293664

  14. Allergisk rinokonjunktivitis pga. erhvervsmæssig udsættelse for ingefær

    DEFF Research Database (Denmark)

    Schmidt, Jan; Dahl, Søren; Sherson, David Lee

    2015-01-01

    We present a case report of occupational allergic rhinoconjunctivitis after exposure to dust from ginger-containing herbal medicine. The likelihood of an aetiological connection between exposure and the patient's symptoms was supported by a temporal association, positive specific IgE, positive...... histamine release test, positive prick test, and positive acoustic rhinometry test. Occupational allergy to ginger has rarely been reported. The cases described - including the one we present - suggest that work-related IgE-mediated allergy is associated with exposure to dry aerosols/dust....

  15. Neuroinformatic Analyses of Common and Distinct Genetic Components Associated with Major Neuropsychiatric Disorders

    Directory of Open Access Journals (Sweden)

    Amit eLotan

    2014-11-01

    Full Text Available Major neuropsychiatric disorders are highly heritable, with mounting evidence suggesting that these disorders share overlapping sets of molecular and cellular underpinnings. In the current article we systematically test the degree of genetic commonality across six major neuropsychiatric disorders—attention deficit hyperactivity disorder, anxiety disorders, autistic spectrum disorders, bipolar disorder, major depressive disorder and schizophrenia. We curated a well-vetted list of genes based on large-scale human genetic studies and verified their appearance on the NHGRI catalog of published genome-wide association studies. A total of 180 genes were accepted into the analysis on the basis of low but liberal GWAS p-values (<10-5. 22% of genes overlapped two or more disorders. The most widely shared subset of genes—common to five of six disorders–included ANK3, AS3MT, CACNA1C, CACNB2, CNNM2, CSMD1, DPCR1, ITIH3, NT5C2, PPP1R11, SYNE1, TCF4, TENM4, TRIM26, and ZNRD1. Using a suite of neuroinformatic resources, we showed that many of the shared genes are implicated in the postsynaptic density, expressed in immune tissues and co-expressed in developing human brain.. Using a translational cross-species approach, we detected two distinct genetic components that were both shared by each of the six disorders; the 1st component is involved in CNS development, neural projections and synaptic transmission, while the 2nd is implicated in various cytoplasmic organelles and cellular processes. Combined, these genetic components account for 20–30% of the genetic load. The remaining risk is conferred by distinct, disorder-specific variants. Nevertheless, the convergence of different analytical approaches on similar targets may bear important implications. Thus, although adding mostly confirmatory findings, higher resolution of shared and unique genetic factors provided in this manuscript could ultimately translate into improved diagnosis and treatment of

  16. Next Generation Attenuation of Ground Motions in Ilan, Taiwan: Establishment and Analysis of Attenuation Relations for Peak Ground Acceleration (PGA) and Peak Ground Velocity (PGV)

    Science.gov (United States)

    Liu, K.

    2009-12-01

    An evaluation of seismic hazards requires an estimate of the expected ground motion at the site of interest. The most common means of estimating this ground motion in engineering practice is the use of an attenuation relation. A number of developments have arisen recently to suggest that a new generation of attenuation relationships is warranted. The project named Next Generation Attenuation of Ground Motions (NGA) Project was developed by Pacific Earthquake Engineering Research Center (PEER) in response to a core objective: reducing uncertainty in earthquake ground motion estimation. This objective reflects recognition from industry sponsors that improvements in earthquake ground motion estimation will result in significant cost savings and will result in improved system performance in the event of a large earthquake. The Central Weather Bureau has implemented the Taiwan Strong Motion Instrumentation Program (TSMIP) to collect high-quality instrumental recordings of strong earthquake shaking.It is necessary for us to study the strong ground motion characteristics at the Ilan area of northeastern Taiwan. Further analyses using a good quality data base that includes 486 events and 4172 recordings of magnitude greater than 4.0 are required to derive the next generation attenuation of ground motion in Ilan area. In addition, Liu and Tsai (2007) used a catalog of more than 1840 shallow earthquakes with homogenized Mw magnitude ranging from 5.0 to 8.2 in 1900-2007 to estimate the seismic hazard potential in Taiwan. As a result, the PGA and PGV contour patterns of maximum ground motion show that Ilan Plain has high values of 0.2g and 80cm/sec with respect to MMI intensity VII and IX, respectively. Furthermore, from the mean ground motion and the seismic intensity rate analyses, they show that a high annul probability of MMI > VI greater than 35 percents are located at the Chianan area of western Taiwan and Ilan Plain in northeastern Taiwan. However, these results was

  17. Improved method of plasma 8-Isoprostane measurement and association analyses with habitual drinking and smoking

    Institute of Scientific and Technical Information of China (English)

    Soichi Kitano; Hisashi Hisatomi; Nozomu Hibi; Katsumi Kawano; Shoji Harada

    2006-01-01

    was limited since elevated 8-isoprostane levels were observed in female heavy drinkers, and no association was found between smokers and nonsmokers.

  18. Comprehensive review of genetic association studies and meta-analyses on miRNA polymorphisms and cancer risk.

    Directory of Open Access Journals (Sweden)

    Kshitij Srivastava

    Full Text Available BACKGROUND: MicroRNAs (miRNAs are small RNA molecules that regulate the expression of corresponding messenger RNAs (mRNAs. Variations in the level of expression of distinct miRNAs have been observed in the genesis, progression and prognosis of multiple human malignancies. The present study was aimed to investigate the association between four highly studied miRNA polymorphisms (mir-146a rs2910164, mir-196a2 rs11614913, mir-149 rs2292832 and mir-499 rs3746444 and cancer risk by using a two-sided meta-analytic approach. METHODS: An updated meta-analysis based on 53 independent case-control studies consisting of 27573 cancer cases and 34791 controls was performed. Odds ratio (OR and 95% confidence interval (95% CI were used to investigate the strength of the association. RESULTS: Overall, the pooled analysis showed that mir-196a2 rs11614913 was associated with a decreased cancer risk (OR = 0.846, P = 0.004, TT vs. CC while other miRNA SNPs showed no association with overall cancer risk. Subgroup analyses based on type of cancer and ethnicity were also performed, and results indicated that there was a strong association between miR-146a rs2910164 and overall cancer risk in Caucasian population under recessive model (OR = 1.274, 95%CI = 1.096-1.481, P = 0.002. Stratified analysis by cancer type also associated mir-196a2 rs11614913 with lung and colorectal cancer at allelic and genotypic level. CONCLUSIONS: The present meta-analysis suggests an important role of mir-196a2 rs11614913 polymorphism with overall cancer risk especially in Asian population. Further studies with large sample size are needed to evaluate and confirm this association.

  19. Association analyses of the MAS-QTL data set using grammar, principal components and Bayesian network methodologies

    Directory of Open Access Journals (Sweden)

    Karacaören Burak

    2011-05-01

    Full Text Available Abstract Background It has been shown that if genetic relationships among individuals are not taken into account for genome wide association studies, this may lead to false positives. To address this problem, we used Genome-wide Rapid Association using Mixed Model and Regression and principal component stratification analyses. To account for linkage disequilibrium among the significant markers, principal components loadings obtained from top markers can be included as covariates. Estimation of Bayesian networks may also be useful to investigate linkage disequilibrium among SNPs and their relation with environmental variables. For the quantitative trait we first estimated residuals while taking polygenic effects into account. We then used a single SNP approach to detect the most significant SNPs based on the residuals and applied principal component regression to take linkage disequilibrium among these SNPs into account. For the categorical trait we used principal component stratification methodology to account for background effects. For correction of linkage disequilibrium we used principal component logit regression. Bayesian networks were estimated to investigate relationship among SNPs. Results Using the Genome-wide Rapid Association using Mixed Model and Regression and principal component stratification approach we detected around 100 significant SNPs for the quantitative trait (p Conclusions GRAMMAR could efficiently incorporate the information regarding random genetic effects. Principal component stratification should be cautiously used with stringent multiple hypothesis testing correction to correct for ancestral stratification and association analyses for binary traits when there are systematic genetic effects such as half sib family structures. Bayesian networks are useful to investigate relationships among SNPs and environmental variables.

  20. Association Study between Lead and Zinc Accumulation at Different Physiological Systems of Cattle by Canonical Correlation and Canonical Correspondence Analyses

    Science.gov (United States)

    Karmakar, Partha; Das, Pradip Kumar; Mondal, Seema Sarkar; Karmakar, Sougata; Mazumdar, Debasis

    2010-10-01

    Pb pollution from automobile exhausts around highways is a persistent problem in India. Pb intoxication in mammalian body is a complex phenomenon which is influence by agonistic and antagonistic interactions of several other heavy metals and micronutrients. An attempt has been made to study the association between Pb and Zn accumulation in different physiological systems of cattles (n = 200) by application of both canonical correlation and canonical correspondence analyses. Pb was estimated from plasma, liver, bone, muscle, kidney, blood and milk where as Zn was measured from all these systems except bone, blood and milk. Both statistical techniques demonstrated that there was a strong association among blood-Pb, liver-Zn, kidney-Zn and muscle-Zn. From observations, it can be assumed that Zn accumulation in cattles' muscle, liver and kidney directs Pb mobilization from those organs which in turn increases Pb pool in blood. It indicates antagonistic activity of Zn to the accumulation of Pb. Although there were some contradictions between the observations obtained from the two different statistical methods, the overall pattern of Pb accumulation in various organs as influenced by Zn were same. It is mainly due to the fact that canonical correlation is actually a special type of canonical correspondence analyses where linear relationship is followed between two groups of variables instead of Gaussian relationship.

  1. Associations between sleep duration, sedentary time, physical activity, and health indicators among Canadian children and youth using compositional analyses.

    Science.gov (United States)

    Carson, Valerie; Tremblay, Mark S; Chaput, Jean-Philippe; Chastin, Sebastien F M

    2016-06-01

    The purpose of this study was to examine the relationships between movement behaviours (sleep duration, sedentary time, physical activity) and health indicators in a representative sample of children and youth using compositional analyses. Cross-sectional findings are based on 4169 children and youth (aged 6-17 years) from cycles 1 to 3 of the Canadian Health Measures Survey. Sedentary time (SB), light-intensity physical activity (LPA), and moderate- to vigorous-intensity physical activity (MVPA) were accelerometer-derived. Sleep duration was subjectively measured. Body mass index z scores, waist circumference, blood pressure, behavioural strengths and difficulties, and aerobic fitness were measured in the full sample. Triglycerides, high-density lipoprotein-cholesterol, C-reactive protein, and insulin were measured in a fasting subsample. The composition of movement behaviours was entered into linear regression models via an isometric log ratio transformation and was found to be associated with all health indicators (p aerobic fitness. Likewise, MVPA was also negatively associated with several cardiometabolic risk markers (p < 0.008). Compositional data analyses provide novel insights into collective health implications of 24-h movement behaviours and can facilitate interesting avenues for future investigations. PMID:27306435

  2. Genome-wide association analyses reveal complex genetic architecture underlying natural variation for flowering time in canola.

    Science.gov (United States)

    Raman, H; Raman, R; Coombes, N; Song, J; Prangnell, R; Bandaranayake, C; Tahira, R; Sundaramoorthi, V; Killian, A; Meng, J; Dennis, E S; Balasubramanian, S

    2016-06-01

    Optimum flowering time is the key to maximize canola production in order to meet global demand of vegetable oil, biodiesel and canola-meal. We reveal extensive variation in flowering time across diverse genotypes of canola under field, glasshouse and controlled environmental conditions. We conduct a genome-wide association study and identify 69 single nucleotide polymorphism (SNP) markers associated with flowering time, which are repeatedly detected across experiments. Several associated SNPs occur in clusters across the canola genome; seven of them were detected within 20 Kb regions of a priori candidate genes; FLOWERING LOCUS T, FRUITFUL, FLOWERING LOCUS C, CONSTANS, FRIGIDA, PHYTOCHROME B and an additional five SNPs were localized within 14 Kb of a previously identified quantitative trait loci for flowering time. Expression analyses showed that among FLC paralogs, BnFLC.A2 accounts for ~23% of natural variation in diverse accessions. Genome-wide association analysis for FLC expression levels mapped not only BnFLC.C2 but also other loci that contribute to variation in FLC expression. In addition to revealing the complex genetic architecture of flowering time variation, we demonstrate that the identified SNPs can be modelled to predict flowering time in diverse canola germplasm accurately and hence are suitable for genomic selection of adaptative traits in canola improvement programmes. PMID:26428711

  3. Surface modification of TPGS- b-(PCL- ran-PGA) nanoparticles with polyethyleneimine as a co-delivery system of TRAIL and endostatin for cervical cancer gene therapy

    Science.gov (United States)

    Zheng, Yi; Chen, Hongbo; Zeng, Xiaowei; Liu, Zhigang; Xiao, Xiaojun; Zhu, Yongqiang; Gu, Dayong; Mei, Lin

    2013-04-01

    The efficient delivery of therapeutic genes into cells of interest is a critical challenge to broad application of non-viral vector systems. In this research, a novel TPGS- b-(PCL- ran-PGA) nanoparticle modified with polyethyleneimine was applied to be a vector of tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) and endostatin for cervical cancer gene therapy. Firstly, a novel biodegradable copolymer, TPGS- b-(PCL- ran-PGA), was synthesized and characterized. The nanoparticles were fabricated by an emulsion/solvent evaporation method and then further modified with polyethyleneimine (PEI) carrying TRAIL and/or endostatin genes. The uptake of pIRES2-EGFP and/or pDsRED nanoparticles by HeLa cells were observed by fluorescence microscopy and confocal laser scanning microscopy. The cell viability of TRAIL/endostatin-loaded nanoparticles in HeLa cells was assessed by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyl-2 H-tetrazolium bromide assay. Severe combined immunodeficient mice carrying HeLa tumor xenografts were treated in groups of six including phosphate-buffered saline control, blank TPGS- b-(PCL- ran-PGA) nanoparticles, blank TPGS- b-(PCL- ran-PGA)/PEI nanoparticles, and three types of gene nanoparticles. The activity was assessed using average increase in survival time, body weight, and solid tumor volume. All the specimens were then prepared as formalin-fixed and paraffin-embedded tissue sections for hematoxylin-eosin staining. The data showed that the nanoparticles could efficiently deliver plasmids into HeLa cells. The cytotoxicity of the HeLa cells was significantly increased by TRAIL/endostatin-loaded nanoparticles when compared with control groups. The use of TPGS in combination with TRAIL and endostatin had synergistic antitumor effects. In conclusion, the TRAIL/endostatin-loaded nanoparticles offer considerable potential as an ideal candidate for in vivo cancer gene delivery.

  4. Investigation of a genome wide association signal for obesity: synthetic association and haplotype analyses at the melanocortin 4 receptor gene locus.

    Directory of Open Access Journals (Sweden)

    André Scherag

    Full Text Available BACKGROUND: Independent genome-wide association studies (GWAS showed an obesogenic effect of two single nucleotide polymorphisms (SNP; rs12970134 and rs17782313 more than 150 kb downstream of the melanocortin 4 receptor gene (MC4R. It is unclear if the SNPs directly influence MC4R function or expression, or if the SNPs are on a haplotype that predisposes to obesity or includes functionally relevant genetic variation (synthetic association. As both exist, functionally relevant mutations and polymorphisms in the MC4R coding region and a robust association downstream of the gene, MC4R is an ideal model to explore synthetic association. METHODOLOGY/PRINCIPAL FINDINGS: We analyzed a genomic region (364.9 kb encompassing the MC4R in GWAS data of 424 obesity trios (extremely obese child/adolescent and both parents. SNP rs12970134 showed the lowest p-value (p = 0.004; relative risk for the obesity effect allele: 1.37; conditional analyses on this SNP revealed that 7 of 78 analyzed SNPs provided independent signals (p≤0.05. These 8 SNPs were used to derive two-marker haplotypes. The three best (according to p-value haplotype combinations were chosen for confirmation in 363 independent obesity trios. The confirmed obesity effect haplotype includes SNPs 3' and 5' of the MC4R. Including MC4R coding variants in a joint model had almost no impact on the effect size estimators expected under synthetic association. CONCLUSIONS/SIGNIFICANCE: A haplotype reaching from a region 5' of the MC4R to a region at least 150 kb from the 3' end of the gene showed a stronger association to obesity than single SNPs. Synthetic association analyses revealed that MC4R coding variants had almost no impact on the association signal. Carriers of the haplotype should be enriched for relevant mutations outside the MC4R coding region and could thus be used for re-sequencing approaches. Our data also underscore the problems underlying the identification of relevant mutations

  5. Large-Scale Genome-Wide Association Studies and Meta-Analyses of Longitudinal Change in Adult Lung Function

    Science.gov (United States)

    Tang, Wenbo; Kowgier, Matthew; Loth, Daan W.; Soler Artigas, María; Joubert, Bonnie R.; Hodge, Emily; Gharib, Sina A.; Smith, Albert V.; Ruczinski, Ingo; Gudnason, Vilmundur; Mathias, Rasika A.; Harris, Tamara B.; Hansel, Nadia N.; Launer, Lenore J.; Barnes, Kathleen C.; Hansen, Joyanna G.; Albrecht, Eva; Aldrich, Melinda C.; Allerhand, Michael; Barr, R. Graham; Brusselle, Guy G.; Couper, David J.; Curjuric, Ivan; Davies, Gail; Deary, Ian J.; Dupuis, Josée; Fall, Tove; Foy, Millennia; Franceschini, Nora; Gao, Wei; Gläser, Sven; Gu, Xiangjun; Hancock, Dana B.; Heinrich, Joachim; Hofman, Albert; Imboden, Medea; Ingelsson, Erik; James, Alan; Karrasch, Stefan; Koch, Beate; Kritchevsky, Stephen B.; Kumar, Ashish; Lahousse, Lies; Li, Guo; Lind, Lars; Lindgren, Cecilia; Liu, Yongmei; Lohman, Kurt; Lumley, Thomas; McArdle, Wendy L.; Meibohm, Bernd; Morris, Andrew P.; Morrison, Alanna C.; Musk, Bill; North, Kari E.; Palmer, Lyle J.; Probst-Hensch, Nicole M.; Psaty, Bruce M.; Rivadeneira, Fernando; Rotter, Jerome I.; Schulz, Holger; Smith, Lewis J.; Sood, Akshay; Starr, John M.; Strachan, David P.; Teumer, Alexander; Uitterlinden, André G.; Völzke, Henry; Voorman, Arend; Wain, Louise V.; Wells, Martin T.; Wilk, Jemma B.; Williams, O. Dale; Heckbert, Susan R.; Stricker, Bruno H.; London, Stephanie J.; Fornage, Myriam; Tobin, Martin D.; O′Connor, George T.; Hall, Ian P.; Cassano, Patricia A.

    2014-01-01

    Background Genome-wide association studies (GWAS) have identified numerous loci influencing cross-sectional lung function, but less is known about genes influencing longitudinal change in lung function. Methods We performed GWAS of the rate of change in forced expiratory volume in the first second (FEV1) in 14 longitudinal, population-based cohort studies comprising 27,249 adults of European ancestry using linear mixed effects model and combined cohort-specific results using fixed effect meta-analysis to identify novel genetic loci associated with longitudinal change in lung function. Gene expression analyses were subsequently performed for identified genetic loci. As a secondary aim, we estimated the mean rate of decline in FEV1 by smoking pattern, irrespective of genotypes, across these 14 studies using meta-analysis. Results The overall meta-analysis produced suggestive evidence for association at the novel IL16/STARD5/TMC3 locus on chromosome 15 (P  =  5.71 × 10-7). In addition, meta-analysis using the five cohorts with ≥3 FEV1 measurements per participant identified the novel ME3 locus on chromosome 11 (P  =  2.18 × 10-8) at genome-wide significance. Neither locus was associated with FEV1 decline in two additional cohort studies. We confirmed gene expression of IL16, STARD5, and ME3 in multiple lung tissues. Publicly available microarray data confirmed differential expression of all three genes in lung samples from COPD patients compared with controls. Irrespective of genotypes, the combined estimate for FEV1 decline was 26.9, 29.2 and 35.7 mL/year in never, former, and persistent smokers, respectively. Conclusions In this large-scale GWAS, we identified two novel genetic loci in association with the rate of change in FEV1 that harbor candidate genes with biologically plausible functional links to lung function. PMID:24983941

  6. Large-scale genome-wide association studies and meta-analyses of longitudinal change in adult lung function.

    Directory of Open Access Journals (Sweden)

    Wenbo Tang

    Full Text Available Genome-wide association studies (GWAS have identified numerous loci influencing cross-sectional lung function, but less is known about genes influencing longitudinal change in lung function.We performed GWAS of the rate of change in forced expiratory volume in the first second (FEV1 in 14 longitudinal, population-based cohort studies comprising 27,249 adults of European ancestry using linear mixed effects model and combined cohort-specific results using fixed effect meta-analysis to identify novel genetic loci associated with longitudinal change in lung function. Gene expression analyses were subsequently performed for identified genetic loci. As a secondary aim, we estimated the mean rate of decline in FEV1 by smoking pattern, irrespective of genotypes, across these 14 studies using meta-analysis.The overall meta-analysis produced suggestive evidence for association at the novel IL16/STARD5/TMC3 locus on chromosome 15 (P  =  5.71 × 10(-7. In addition, meta-analysis using the five cohorts with ≥3 FEV1 measurements per participant identified the novel ME3 locus on chromosome 11 (P  =  2.18 × 10(-8 at genome-wide significance. Neither locus was associated with FEV1 decline in two additional cohort studies. We confirmed gene expression of IL16, STARD5, and ME3 in multiple lung tissues. Publicly available microarray data confirmed differential expression of all three genes in lung samples from COPD patients compared with controls. Irrespective of genotypes, the combined estimate for FEV1 decline was 26.9, 29.2 and 35.7 mL/year in never, former, and persistent smokers, respectively.In this large-scale GWAS, we identified two novel genetic loci in association with the rate of change in FEV1 that harbor candidate genes with biologically plausible functional links to lung function.

  7. Genome-Wide Association Analyses in 128,266 Individuals Identifies New Morningness and Sleep Duration Loci

    Science.gov (United States)

    Jones, Samuel E.; Tyrrell, Jessica; Tuke, Marcus A.; Yaghootkar, Hanieh; Hu, Youna; Teder-Laving, Maris; Hayward, Caroline; Roenneberg, Till; Del Greco, Fabiola; Hicks, Andrew A.; Shin, Chol; Metspalu, Andres; Byrne, Enda M.; Gehrman, Philip R.; Tiemeier, Henning; Allebrandt, Karla V.; Murray, Anna; Hinds, David A.

    2016-01-01

    Disrupted circadian rhythms and reduced sleep duration are associated with several human diseases, particularly obesity and type 2 diabetes, but until recently, little was known about the genetic factors influencing these heritable traits. We performed genome-wide association studies of self-reported chronotype (morning/evening person) and self-reported sleep duration in 128,266 white British individuals from the UK Biobank study. Sixteen variants were associated with chronotype (P<5x10-8), including variants near the known circadian rhythm genes RGS16 (1.21 odds of morningness, 95% CI [1.15, 1.27], P = 3x10-12) and PER2 (1.09 odds of morningness, 95% CI [1.06, 1.12], P = 4x10-10). The PER2 signal has previously been associated with iris function. We sought replication using self-reported data from 89,283 23andMe participants; thirteen of the chronotype signals remained associated at P<5x10-8 on meta-analysis and eleven of these reached P<0.05 in the same direction in the 23andMe study. We also replicated 9 additional variants identified when the 23andMe study was used as a discovery GWAS of chronotype (all P<0.05 and meta-analysis P<5x10-8). For sleep duration, we replicated one known signal in PAX8 (2.6 minutes per allele, 95% CI [1.9, 3.2], P = 5.7x10-16) and identified and replicated two novel associations at VRK2 (2.0 minutes per allele, 95% CI [1.3, 2.7], P = 1.2x10-9; and 1.6 minutes per allele, 95% CI [1.1, 2.2], P = 7.6x10-9). Although we found genetic correlation between chronotype and BMI (rG = 0.056, P = 0.05); undersleeping and BMI (rG = 0.147, P = 1x10-5) and oversleeping and BMI (rG = 0.097, P = 0.04), Mendelian Randomisation analyses, with limited power, provided no consistent evidence of causal associations between BMI or type 2 diabetes and chronotype or sleep duration. Our study brings the total number of loci associated with chronotype to 22 and with sleep duration to three, and provides new insights into the biology of sleep and circadian

  8. Dynamic Associations of Change in Physical Activity and Change in Cognitive Function: Coordinated Analyses of Four Longitudinal Studies

    Directory of Open Access Journals (Sweden)

    Magnus Lindwall

    2012-01-01

    Full Text Available The present study used a coordinated analyses approach to examine the association of physical activity and cognitive change in four longitudinal studies. A series of multilevel growth models with physical activity included both as a fixed (between-person and time-varying (within-person predictor of four domains of cognitive function (reasoning, memory, fluency, and semantic knowledge was used. Baseline physical activity predicted fluency, reasoning and memory in two studies. However, there was a consistent pattern of positive relationships between time-specific changes in physical activity and time-specific changes in cognition, controlling for expected linear trajectories over time, across all four studies. This pattern was most evident for the domains of reasoning and fluency.

  9. Meta-Analyses of Association Between BRAFV600E Mutation and Clinicopathological Features of Papillary Thyroid Carcinoma

    Directory of Open Access Journals (Sweden)

    Qing Zhang

    2016-02-01

    Full Text Available Background/Aims: The function of BRAF V600E as a prognostic biomarker continues controversial by reason of conflicting results in the published articles. Methods: A systematical literature search for relevant articles was performed in PubMed, Cochrane Library, Google Scholar, Medline and Embase updated to August 5, 2015. The Chi-square test and I2 were employed to examine statistical heterogeneity. Pooled ORs with their corresponding 95% confidence intervals (95%CIs were calculated to assess the relationship between clinicopathological features and BRAFV600E mutation. Subgroup analyses by ethnicity were also performed to explore the potential sources of heterogeneity. Furthermore, publication bias was detected using the funnel plot and all statistical analyses were conducted by the software of R 3.12. Results: Of 25,241 cases with PTC, 15,290 (60.6% were positive for BRAF mutation and 9,951 (39.4% were tested negative for BRAF mutation. Negative status of BRAFV600E mutation negative was significantly associated with gender (OR = 0.90, 95%CI = 0.83-0.97 and concomitant hashimoto thyroiditis (OR = 0.53, 95%CI = 0.43-0.64. By contrast, positive status of BRAFV600E mutation was a significant predictor of multifocality (OR = 1.23; 95%CI = 1.14-1.32, extrathyroidal extension (OR = 2.23; 95%CI = 1.90-2.63, TNM stage (OR = 1.67; 95%CI = 1.53-1.81, lymph node metastasis (OR = 1.67; 95%CI = 1.45-1.93, vascular invasion (OR = 1.47; 95%CI = 1.22-1.79 and recurrence/persistence (OR = 2.33; 95%CI = 1.71-3.18. However, there was no significant association between BRAFV600E mutation and factors including age > 45 (OR = 0.98; 95%CI = 0.89-1.07, tumor size (OR = 0.84; 95%CI = 0.64-1.09 and distant metastasis (OR = 1.23; 95%CI = 0.67-2.27. Conclusion: This meta-analysis confirmed significant associations between BRAFV600E mutation and female gender, multifocality, ETE, LNM, TNM stage, concomitant hashimoto thyroiditis, vascular invasion and recurrence

  10. Reversible Conjunctival Pigmentation Associated With Prostaglandin Use.

    Science.gov (United States)

    Choi, Daniel Y; Chang, Robert T; Yegnashankaran, Krishnan; Friedman, Neil J

    2016-01-01

    A 54-year-old Indian male with a diagnosis of ocular hypertension was started on a prostaglandin analog (PGA) in both eyes to lower intraocular pressure. Six years later, he developed progressively increasing bilateral limbal conjunctival hyperpigmentation. Travoprost was discontinued and replaced with brinzolamide and over the next year, the patient's conjunctival pigmentation improved significantly in both the eyes. This case report documents with slit-lamp photography the first case of conjunctival pigmentation associated with PGA use that has been shown to have reversal with discontinuation of the PGA. Because of the widespread use of PGAs, and the evolving nature of the conjunctival pigmentation, clinicians should be aware of this reversible condition when considering biopsy or removal of conjunctival melanocytic lesions. PMID:25967530

  11. Optimization of Fermentation Conditions forγ-PGA with Response Surface Method%响应面法优化γ-聚谷氨酸发酵条件

    Institute of Scientific and Technical Information of China (English)

    张智维; 刘婷; 张海群

    2015-01-01

    以一株从纳豆中分离得到的纳豆芽孢杆菌进行γ-聚谷氨酸发酵,利用响应面法对发酵的条件进行优化。实验结果表明:接种量、pH值和温度是影响发酵的主要因素。最终达到该株纳豆芽孢杆菌发酵γ-聚谷氨酸的最佳发酵条件:温度40.00℃,接种量7.1%,pH值7.76。此条件下γ-PGA为19.612 g/L。%γ-polyglutamic (γ-PGA)is produced by fermentation of Bacillus subtilis natto screened from natto.Furthermore, the optimization of fermentation conditions by response surface method is studied.The results indicate that inoculation quantity,pH value and temperature are the main factors that impact the fermentation process. Finally, the Bacillus subtilis natto possesses the optimal fermentation conditions:temperature of 40.00 ℃,inoculation quantity of 7.1%,and pH value of 7.76.Under such conditions,the yield ofγ-PGA reaches 19.612 g/L.

  12. Clinical, polysomnographic and genome-wide association analyses of narcolepsy with cataplexy: a European Narcolepsy Network study

    NARCIS (Netherlands)

    Luca, G. De; Haba-Rubio, J.; Dauvilliers, Y.; Lammers, G.J.; Overeem, S.; Donjacour, C.E.; Mayer, G.; Javidi, S.; Iranzo, A.; Santamaria, J.; Peraita-Adrados, R.; Hor, H.; Kutalik, Z.; Plazzi, G.; Poli, F.; Pizza, F.; Arnulf, I.; Lecendreux, M.; Bassetti, C.; Mathis, J.; Heinzer, R.; Jennum, P.; Knudsen, S.; Geisler, P.; Wierzbicka, A.; Feketeova, E.; Pfister, C.; Khatami, R.; Baumann, C.; Tafti, M.

    2013-01-01

    The aim of this study was to describe the clinical and PSG characteristics of narcolepsy with cataplexy and their genetic predisposition by using the retrospective patient database of the European Narcolepsy Network (EU-NN). We have analysed retrospective data of 1099 patients with narcolepsy diagno

  13. Adverse Events Associated with Flumazenil Treatment for the Management of Suspected Benzodiazepine Intoxication - A Systematic Review with Meta-Analyses of Randomised Trials

    DEFF Research Database (Denmark)

    Penninga, Elisabeth I; Graudal, Niels; Ladekarl, Morten Baekbo;

    2016-01-01

    the risk of (S)AEs associated with the use of flumazenil in patients with impaired consciousness due to known or suspected benzodiazepine overdose. Studies included in the meta-analyses were identified by literature search in Medline, Cochrane Library and Embase using combinations of the words flumazenil...

  14. Genome-Wide Meta-Analyses of Breast, Ovarian, and Prostate Cancer Association Studies Identify Multiple New Susceptibility Loci Shared by at Least Two Cancer Types

    DEFF Research Database (Denmark)

    Kar, Siddhartha P; Beesley, Jonathan; Amin Al Olama, Ali;

    2016-01-01

    UNLABELLED: Breast, ovarian, and prostate cancers are hormone-related and may have a shared genetic basis, but this has not been investigated systematically by genome-wide association (GWA) studies. Meta-analyses combining the largest GWA meta-analysis data sets for these cancers totaling 112,349...

  15. Preparation of PL-γ-PGA Nanoparticles for PQQ-GDHs Release%葡萄糖脱氢酶缓释系统PL-γ-PGA纳米颗粒的制备及研究

    Institute of Scientific and Technical Information of China (English)

    宋霄; 朱凡; 于怡; 张慧莉; 黄磊; 蔡谨; 徐志南

    2012-01-01

    γ-聚谷氨酸( γ-PGA)是一种由枯草芽孢杆菌发酵生产的阴离子聚合物,具有良好的吸水性、生物相容性和生物降解性,无毒性且可由人体降解代谢,是一种很理想的药物载体.发酵得到的γ-PGA一般都具有很高的分子量,本文通过酸水解的方法,得到分子量符合药物载体要求的γ-PGA,并采用离子凝胶法,在水相反应体系中由低分子量γ-PGA与聚赖氨酸(PL)制备得到形态及表面特性良好的PL-γ-PGA纳米颗粒,粒径200~500 nm.在此基础上,制备了搭载葡萄糖脱氢酶(PQQ-GDHs)的PL-γ-PGA纳米缓释系统,载药效率达到61.2%,并且具有很好的稳定性,在体外模拟胃肠道和血液系统的缓释结果表明,分别有31.7%和40.2%的PQQ-GDHs在前48 h被释放.%7-PGA is a kind of anionic polymer which is produced by microbial fermentation . It has a good capability of water absorption, biodegradation and biocompatibility, also it is non-toxic and can be metabolized in human body. These properties make it an ideal drug delivery. 7-PGA produced by fermentation has high molecular weight. Acid hydrolysis is used to reduce the molecular weight so that γ-PGA could fulfill the requirement of drug delivery. And also, ionic gelation method was applied to make low molecular weight 7-PGA and PL react in aqueous phase to produce novel nanoparticles with good shape and surface characteristic. The diameter of the prepared nanoparticles is about 200 ~ 500 nm. These novel PL-γ-PGA nanoparticles were then used to produce the release system of PL-7-PGA nanoparticles carried PQQ-GDHs. Drug delivered efficiency was stable and about 61. 2%. Under the condition of simulated outside gastrointestinal tract and blood system,31.7% and 40.2% PQQ-GDHs were released in first 48 h from the modeling released test, respectively.

  16. Meta-analyses identify 13 loci associated with age at menopause and highlight DNA repair and immune pathways

    NARCIS (Netherlands)

    Stolk, Lisette; Perry, John R B; Chasman, Daniel I; He, Chunyan; Mangino, Massimo; Sulem, Patrick; Barbalic, Maja; Broer, Linda; Byrne, Enda M; Ernst, Florian; Esko, Tõnu; Franceschini, Nora; Gudbjartsson, Daniel F; Hottenga, Jouke-Jan; Kraft, Peter; McArdle, Patrick F; Porcu, Eleonora; Shin, So-Youn; Smith, Albert V; van Wingerden, Sophie; Zhai, Guangju; Zhuang, Wei V; Albrecht, Eva; Alizadeh, Behrooz Z; Aspelund, Thor; Bandinelli, Stefania; Lauc, Lovorka Barac; Beckmann, Jacques S; Boban, Mladen; Boerwinkle, Eric; Broekmans, Frank J; Burri, Andrea; Campbell, Harry; Chanock, Stephen J; Chen, Constance; Cornelis, Marilyn C; Corre, Tanguy; Coviello, Andrea D; d'Adamo, Pio; Davies, Gail; de Faire, Ulf; de Geus, Eco J C; Deary, Ian J; Dedoussis, George V Z; Deloukas, Panagiotis; Ebrahim, Shah; Eiriksdottir, Gudny; Emilsson, Valur; Eriksson, Johan G; Fauser, Bart C J M; Ferreli, Liana; Ferrucci, Luigi; Fischer, Krista; Folsom, Aaron R; Garcia, Melissa E; Gasparini, Paolo; Gieger, Christian; Glazer, Nicole; Grobbee, Diederick E; Hall, Per; Haller, Toomas; Hankinson, Susan E; Hass, Merli; Hayward, Caroline; Heath, Andrew C; Hofman, Albert; Ingelsson, Erik; Janssens, A Cecile J W; Johnson, Andrew D; Karasik, David; Kardia, Sharon L R; Keyzer, Jules; Kiel, Douglas P; Kolcic, Ivana; Kutalik, Zoltán; Lahti, Jari; Lai, Sandra; Laisk, Triin; Laven, Joop S E; Lawlor, Debbie A; Liu, Jianjun; Lopez, Lorna M; Louwers, Yvonne V; Magnusson, Patrik K E; Marongiu, Mara; Martin, Nicholas G; Klaric, Irena Martinovic; Masciullo, Corrado; McKnight, Barbara; Medland, Sarah E; Melzer, David; Mooser, Vincent; Navarro, Pau; Newman, Anne B; Nyholt, Dale R; Onland-Moret, N Charlotte; Palotie, Aarno; Paré, Guillaume; Parker, Alex N; Pedersen, Nancy L; Peeters, Petra H M; Pistis, Giorgio; Plump, Andrew S; Polasek, Ozren; Pop, Victor J M; Psaty, Bruce M; Räikkönen, Katri; Rehnberg, Emil; Rotter, Jerome I; Rudan, Igor; Sala, Cinzia; Salumets, Andres; Scuteri, Angelo; Singleton, Andrew; Smith, Jennifer A; Snieder, Harold; Soranzo, Nicole; Stacey, Simon N; Starr, John M; Stathopoulou, Maria G; Stirrups, Kathleen; Stolk, Ronald P; Styrkarsdottir, Unnur; Sun, Yan V; Tenesa, Albert; Thorand, Barbara; Toniolo, Daniela; Tryggvadottir, Laufey; Tsui, Kim; Ulivi, Sheila; van Dam, Rob M; van der Schouw, Yvonne T; van Gils, Carla H; van Nierop, Peter; Vink, Jacqueline M; Visscher, Peter M; Voorhuis, Marlies; Waeber, Gérard; Wallaschofski, Henri; Wichmann, H Erich; Widen, Elisabeth; Wijnands-van Gent, Colette J M; Willemsen, Gonneke; Wilson, James F; Wolffenbuttel, Bruce H R; Wright, Alan F; Yerges-Armstrong, Laura M; Zemunik, Tatijana; Zgaga, Lina; Zillikens, M Carola; Zygmunt, Marek; Arnold, Alice M; Boomsma, Dorret I; Buring, Julie E; Crisponi, Laura; Demerath, Ellen W; Gudnason, Vilmundur; Harris, Tamara B; Hu, Frank B; Hunter, David J; Launer, Lenore J; Metspalu, Andres; Montgomery, Grant W; Oostra, Ben A; Ridker, Paul M; Sanna, Serena; Schlessinger, David; Spector, Tim D; Stefansson, Kari; Streeten, Elizabeth A; Thorsteinsdottir, Unnur; Uda, Manuela; Uitterlinden, André G; van Duijn, Cornelia M; Völzke, Henry; Murray, Anna; Murabito, Joanne M; Visser, Jenny A; Lunetta, Kathryn L

    2012-01-01

    To newly identify loci for age at natural menopause, we carried out a meta-analysis of 22 genome-wide association studies (GWAS) in 38,968 women of European descent, with replication in up to 14,435 women. In addition to four known loci, we identified 13 loci newly associated with age at natural men

  17. Genome-wide association analyses identify new risk variants and the genetic architecture of amyotrophic lateral sclerosis

    NARCIS (Netherlands)

    van Rheenen, Wouter; Shatunov, Aleksey; Dekker, Annelot M; McLaughlin, Russell L; Diekstra, Frank P; Pulit, Sara L; van der Spek, Rick A A; Võsa, Urmo; de Jong, Simone; Robinson, Matthew R; Yang, Jian; Fogh, Isabella; van Doormaal, Perry Tc; Tazelaar, Gijs H P; Koppers, Max; Blokhuis, Anna M; Sproviero, William; Jones, Ashley R; Kenna, Kevin P; van Eijk, Kristel R; Harschnitz, Oliver; Schellevis, Raymond D; Brands, William J; Medic, Jelena; Menelaou, Androniki; Vajda, Alice; Ticozzi, Nicola; Lin, Kuang; Rogelj, Boris; Vrabec, Katarina; Ravnik-Glavač, Metka; Koritnik, Blaž; Zidar, Janez; Leonardis, Lea; Grošelj, Leja Dolenc; Millecamps, Stéphanie; Salachas, François; Meininger, Vincent; de Carvalho, Mamede; Pinto, Susana; Mora, Jesus S; Rojas-García, Ricardo; Polak, Meraida; Chandran, Siddharthan; Colville, Shuna; Swingler, Robert; Morrison, Karen E; Shaw, Pamela J; Hardy, John; Orrell, Richard W; Pittman, Alan; Sidle, Katie; Fratta, Pietro; Malaspina, Andrea; Topp, Simon; Petri, Susanne; Abdulla, Susanne; Drepper, Carsten; Sendtner, Michael; Meyer, Thomas; Ophoff, Roel A.; Staats, Kim A; Wiedau-Pazos, Martina; Lomen-Hoerth, Catherine; Van Deerlin, Vivianna M; Trojanowski, John Q; Elman, Lauren; McCluskey, Leo; Basak, A Nazli; Tunca, Ceren; Hamzeiy, Hamid; Parman, Yesim; Meitinger, Thomas; Lichtner, Peter; Radivojkov-Blagojevic, Milena; Andres, Christian R; Maurel, Cindy; Bensimon, Gilbert; Landwehrmeyer, Bernhard; Brice, Alexis; Payan, Christine A M; Saker-Delye, Safaa; Dürr, Alexandra; Wood, Nicholas W; Tittmann, Lukas; Lieb, Wolfgang; Franke, Andre; Rietschel, Marcella; Cichon, Sven; Nöthen, Markus M; Amouyel, Philippe; Tzourio, Christophe; Dartigues, Jean-François; Uitterlinden, Andre G; Rivadeneira, Fernando; Estrada, Karol; Hofman, Albert; Curtis, Charles; Blauw, Hylke M; van der Kooi, Anneke J; de Visser, Marianne; Goris, An; Weber, Markus; Shaw, Christopher E; Smith, Bradley N; Pansarasa, Orietta; Cereda, Cristina; Del Bo, Roberto; Comi, Giacomo P; D'Alfonso, Sandra; Bertolin, Cinzia; Sorarù, Gianni; Mazzini, Letizia; Pensato, Viviana; Gellera, Cinzia; Tiloca, Cinzia; Ratti, Antonia; Calvo, Andrea; Moglia, Cristina; Brunetti, Maura; Arcuti, Simona; Capozzo, Rosa; Zecca, Chiara; Lunetta, Christian; Penco, Silvana; Riva, Nilo; Padovani, Alessandro; Filosto, Massimiliano; Muller, Bernard; Stuit, Robbert Jan; Blair, Ian; Zhang, Katharine; McCann, Emily P; Fifita, Jennifer A; Nicholson, Garth A; Rowe, Dominic B; Pamphlett, Roger; Kiernan, Matthew C; Grosskreutz, Julian; Witte, Otto W; Ringer, Thomas; Prell, Tino; Stubendorff, Beatrice; Kurth, Ingo; Hübner, Christian A; Leigh, P Nigel; Casale, Federico; Chio, Adriano; Beghi, Ettore; Pupillo, Elisabetta; Tortelli, Rosanna; Logroscino, Giancarlo; Powell, John; Ludolph, Albert C; Weishaupt, Jochen H; Robberecht, Wim; Van Damme, Philip; Franke, Lude; Pers, Tune H; Brown, Robert H; Glass, Jonathan D; Landers, John E; Hardiman, Orla; Andersen, Peter M; Corcia, Philippe; Vourc'h, Patrick; Silani, Vincenzo; Wray, Naomi R; Visscher, Peter M; de Bakker, Paul I W; van Es, Michael A; Pasterkamp, R Jeroen; Lewis, Cathryn M; Breen, Gerome; Al-Chalabi, Ammar; van den Berg, Leonard H; Veldink, Jan H

    2016-01-01

    To elucidate the genetic architecture of amyotrophic lateral sclerosis (ALS) and find associated loci, we assembled a custom imputation reference panel from whole-genome-sequenced patients with ALS and matched controls (n = 1,861). Through imputation and mixed-model association analysis in 12,577 ca

  18. Genome-wide association analyses based on whole-genome sequencing in Sardinia provide insights into regulation of hemoglobin levels.

    Science.gov (United States)

    Danjou, Fabrice; Zoledziewska, Magdalena; Sidore, Carlo; Steri, Maristella; Busonero, Fabio; Maschio, Andrea; Mulas, Antonella; Perseu, Lucia; Barella, Susanna; Porcu, Eleonora; Pistis, Giorgio; Pitzalis, Maristella; Pala, Mauro; Menzel, Stephan; Metrustry, Sarah; Spector, Timothy D; Leoni, Lidia; Angius, Andrea; Uda, Manuela; Moi, Paolo; Thein, Swee Lay; Galanello, Renzo; Abecasis, Gonçalo R; Schlessinger, David; Sanna, Serena; Cucca, Francesco

    2015-11-01

    We report genome-wide association study results for the levels of A1, A2 and fetal hemoglobins, analyzed for the first time concurrently. Integrating high-density array genotyping and whole-genome sequencing in a large general population cohort from Sardinia, we detected 23 associations at 10 loci. Five signals are due to variants at previously undetected loci: MPHOSPH9, PLTP-PCIF1, ZFPM1 (FOG1), NFIX and CCND3. Among the signals at known loci, ten are new lead variants and four are new independent signals. Half of all variants also showed pleiotropic associations with different hemoglobins, which further corroborated some of the detected associations and identified features of coordinated hemoglobin species production. PMID:26366553

  19. Genome-wide association analyses identifies a susceptibility locus for tuberculosis on chromosome 18q11.2

    Science.gov (United States)

    Wong, Sunny H.; Owusu-Dabo, Ellis; Osei, Ivy; Gyapong, John; Sirugo, Giorgio; Sisay-Joof, Fatou; Enimil, Anthony; Chinbuah, Margaret A.; Floyd, Sian; Warndorff, David K.; Sichali, Lifted; Malema, Simon; Crampin, Amelia C.; Ngwira, Bagrey; Teo, Yik Y.; Small, Kerrin; Rockett, Kirk; Kwiatkowski, Dominic; Fine, Paul E.; Hill, Philip C.; Newport, Melanie; Lienhardt, Christian; Adegbola, Richard A.; Corrah, Tumani; Ziegler, Andreas; Morris, Andrew P.; Meyer, Christian G.

    2013-01-01

    We combined two tuberculosis (TB) genome-wide association studies (GWAS) from Ghana and The Gambia with subsequent replication totalling 11,425 participants. A significant association with disease was observed at SNP rs4331426 located in a gene-poor region on chromosome 18q11.2 (P=6.8×10−9, OR=1.19, 95%CI=1.13-1.27). Our finding shows that GWAS can identify novel loci for infectious causes of mortality even in Africa where levels of linkage disequilibrium are particularly low. PMID:20694014

  20. Phylogenetic analyses of Podaxis specimens from Southern Africa reveal hidden diversity and new insights into associations with termites

    NARCIS (Netherlands)

    Conlon, Benjamin H.; Beer, de Z.W.; Fine Licht, De Henrik H.; Aanen, Duur K.; Poulsen, Michael

    2016-01-01

    Although frequently found on mounds of the grass-cutting termite genus . Trinervitermes, virtually nothing is known about the natural history of the fungal genus . Podaxis (Agaricaceae) nor why it associates with termite mounds. More than 40 species of this secotioid genus have been described sin

  1. Multiple independent analyses reveal only transcription factors as an enriched functional class associated with microRNAs

    DEFF Research Database (Denmark)

    Croft, Laurence J; Szklarczyk, Damian; Jensen, Lars J;

    2012-01-01

    reveal statistically significant associations between miRNAs and both TFs and signal transduction gene classes. Secondly, prediction of miRNA targets in human and mouse 3'UTRs show enrichment only for TFs but not consistently across prediction methods for signal transduction or other gene classes...

  2. SNP analyses of growth factor genes EGF, TGFβ-1, and HGF reveal haplotypic association of EGF with autism

    International Nuclear Information System (INIS)

    Autism is a pervasive neurodevelopmental disorder diagnosed in early childhood. Growth factors have been found to play a key role in the cellular differentiation and proliferation of the central and peripheral nervous systems. Epidermal growth factor (EGF) is detected in several regions of the developing and adult brain, where, it enhances the differentiation, maturation, and survival of a variety of neurons. Transforming growth factor-β (TGFβ) isoforms play an important role in neuronal survival, and the hepatocyte growth factor (HGF) has been shown to exhibit neurotrophic activity. We examined the association of EGF, TGFβ1, and HGF genes with autism, in a trio association study, using DNA samples from families recruited to the Autism Genetic Resource Exchange; 252 trios with a male offspring scored for autism were selected for the study. Transmission disequilibrium test revealed significant haplotypic association of EGF with autism. No significant SNP or haplotypic associations were observed for TGFβ1 or HGF. Given the role of EGF in brain and neuronal development, we suggest a possible role of EGF in the pathogenesis of autism

  3. Causal path analyses of the association of protein intake with risk of mortality and graft failure in renal transplant recipients

    NARCIS (Netherlands)

    Said, M. Yusof; Deetman, Petronella E.; de Vries, Aiko P. J.; Zelle, Dorien M.; Gans, Rijk O. B.; Navis, Gerjan; Joosten, Michel M.; Bakker, Stephan J. L.

    2015-01-01

    The effect of a low protein intake on survival in renal transplant recipients (RTR) is unknown. A low protein intake may increase risks of malnutrition, low muscle mass, and death. We aimed to study associations of protein intake with mortality and graft failure and to identify potential intermediat

  4. Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses

    NARCIS (Netherlands)

    Okbay, Aysu; Baselmans, Bart M L; De Neve, Jan-Emmanuel; Turley, Patrick; Nivard, Michel G; Fontana, Mark Alan; Meddens, S Fleur W; Linnér, Richard Karlsson; Rietveld, Cornelius A; Derringer, Jaime; Gratten, Jacob; Lee, James J; Liu, Jimmy Z; de Vlaming, Ronald; Ahluwalia, Tarunveer S; Buchwald, Jadwiga; Cavadino, Alana; Frazier-Wood, Alexis C; Furlotte, Nicholas A; Garfield, Victoria; Geisel, Marie Henrike; Gonzalez, Juan R; Haitjema, Saskia; Karlsson, Robert; van der Laan, Sander W; Ladwig, Karl-Heinz; Lahti, Jari; van der Lee, Sven J; Lind, Penelope A; Liu, Tian; Matteson, Lindsay; Mihailov, Evelin; Miller, Michael B; Minica, Camelia C; Nolte, Ilja M; Mook-Kanamori, Dennis; van der Most, Peter J; Oldmeadow, Christopher; Qian, Yong; Raitakari, Olli; Rawal, Rajesh; Realo, Anu; Rueedi, Rico; Schmidt, Börge; Smith, Albert V; Stergiakouli, Evie; Tanaka, Toshiko; Taylor, Kent; Wedenoja, Juho; Wellmann, Juergen; Westra, Harm-Jan; Willems, Sara M; Zhao, Wei; Amin, Najaf; Bakshi, Andrew; Boyle, Patricia A; Cherney, Samantha; Cox, Simon R; Davies, Gail; Davis, Oliver S P; Ding, Jun; Direk, Nese; Eibich, Peter; Emeny, Rebecca T; Fatemifar, Ghazaleh; Faul, Jessica D; Ferrucci, Luigi; Forstner, Andreas; Gieger, Christian; Gupta, Richa; Harris, Tamara B; Harris, Juliette M; Holliday, Elizabeth G; Hottenga, Jouke-Jan; De Jager, Philip L; Kaakinen, Marika A; Kajantie, Eero; Karhunen, Ville; Kolcic, Ivana; Kumari, Meena; Launer, Lenore J; Franke, Lude; Li-Gao, Ruifang; Koini, Marisa; Loukola, Anu; Marques-Vidal, Pedro; Montgomery, Grant W; Mosing, Miriam A; Paternoster, Lavinia; Pattie, Alison; Petrovic, Katja E; Pulkki-Råback, Laura; Quaye, Lydia; Räikkönen, Katri; Rudan, Igor; Scott, Rodney J; Smith, Jennifer A; Sutin, Angelina R; Trzaskowski, Maciej; Vinkhuyzen, Anna E; Yu, Lei; Zabaneh, Delilah; Attia, John R; Bennett, David A; Berger, Klaus; Bertram, Lars; Boomsma, Dorret I; Snieder, Harold; Chang, Shun-Chiao; Cucca, Francesco; Deary, Ian J; van Duijn, Cornelia M; Eriksson, Johan G; Bültmann, Ute; de Geus, Eco J C; Groenen, Patrick J F; Gudnason, Vilmundur; Hansen, Torben; Hartman, Catharine A; Haworth, Claire M A; Hayward, Caroline; Heath, Andrew C; Hinds, David A; Hyppönen, Elina; Iacono, William G; Järvelin, Marjo-Riitta; Jöckel, Karl-Heinz; Kaprio, Jaakko; Kardia, Sharon L R; Keltikangas-Järvinen, Liisa; Kraft, Peter; Kubzansky, Laura D; Lehtimäki, Terho; Magnusson, Patrik K E; Martin, Nicholas G; McGue, Matt; Metspalu, Andres; Mills, Melinda; de Mutsert, Renée; Oldehinkel, Albertine J; Pasterkamp, Gerard; Pedersen, Nancy L; Plomin, Robert; Polasek, Ozren; Power, Christine; Rich, Stephen S; Rosendaal, Frits R; den Ruijter, Hester M; Schlessinger, David; Schmidt, Helena; Svento, Rauli; Schmidt, Reinhold; Alizadeh, Behrooz Z; Sørensen, Thorkild I A; Spector, Tim D; Steptoe, Andrew; Terracciano, Antonio; Thurik, A Roy; Timpson, Nicholas J; Tiemeier, Henning; Uitterlinden, André G; Vollenweider, Peter; Wagner, Gert G; Weir, David R; Yang, Jian; Conley, Dalton C; Smith, George Davey; Hofman, Albert; Johannesson, Magnus; Laibson, David I; Medland, Sarah E; Meyer, Michelle N; Pickrell, Joseph K; Esko, Tõnu; Krueger, Robert F; Beauchamp, Jonathan P; Koellinger, Philipp D; Benjamin, Daniel J; Bartels, Meike; Cesarini, David

    2016-01-01

    Very few genetic variants have been associated with depression and neuroticism, likely because of limitations on sample size in previous studies. Subjective well-being, a phenotype that is genetically correlated with both of these traits, has not yet been studied with genome-wide data. We conducted

  5. Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses

    DEFF Research Database (Denmark)

    Okbay, Aysu; Baselmans, Bart M L; De Neve, Jan-Emmanuel;

    2016-01-01

    Very few genetic variants have been associated with depression and neuroticism, likely because of limitations on sample size in previous studies. Subjective well-being, a phenotype that is genetically correlated with both of these traits, has not yet been studied with genome-wide data. We conduct...

  6. RNA Expression and Post-Transcriptional Editing Analyses of Cucumber Plastids Reveals Genetic Differences Associated with Chilling Tolerance

    Science.gov (United States)

    Tolerance to chilling injury in cucumber (Cucumis sativus L.) is associated with three plastomic single nucleotide polymorphisms (ptSNPs) at bp positions 4,813, 56,561, and 126,349 that are co-inherited. An understanding of the genetic expression of these ptSNPs as a response to chilling is critical...

  7. Medicinal plants recommended by the world health organization: DNA barcode identification associated with chemical analyses guarantees their quality.

    Directory of Open Access Journals (Sweden)

    Rafael Melo Palhares

    Full Text Available Medicinal plants are used throughout the world, and the regulations defining their proper use, such as identification of the correct species and verification of the presence, purity and concentration of the required chemical compounds, are widely recognized. Herbal medicines are made from vegetal drugs, the processed products of medicinal species. These processed materials present a number of challenges in terms of botanical identification, and according to the World Health Organization (WHO, the use of incorrect species is a threat to consumer safety. The samples used in this study consisted of the dried leaves, flowers and roots of 257 samples from 8 distinct species approved by the WHO for the production of medicinal herbs and sold in Brazilian markets. Identification of the samples in this study using DNA barcoding (matK, rbcL and ITS2 regions revealed that the level of substitutions may be as high as 71%. Using qualitative and quantitative chemical analyses, this study identified situations in which the correct species was being sold, but the chemical compounds were not present. Even more troubling, some samples identified as substitutions using DNA barcoding contained the chemical compounds from the correct species at the minimum required concentration. This last situation may lead to the use of unknown species or species whose safety for human consumption remains unknown. This study concludes that DNA barcoding should be used in a complementary manner for species identification with chemical analyses to detect and quantify the required chemical compounds, thus improving the quality of this class of medicines.

  8. Medicinal plants recommended by the world health organization: DNA barcode identification associated with chemical analyses guarantees their quality.

    Science.gov (United States)

    Palhares, Rafael Melo; Gonçalves Drummond, Marcela; Dos Santos Alves Figueiredo Brasil, Bruno; Pereira Cosenza, Gustavo; das Graças Lins Brandão, Maria; Oliveira, Guilherme

    2015-01-01

    Medicinal plants are used throughout the world, and the regulations defining their proper use, such as identification of the correct species and verification of the presence, purity and concentration of the required chemical compounds, are widely recognized. Herbal medicines are made from vegetal drugs, the processed products of medicinal species. These processed materials present a number of challenges in terms of botanical identification, and according to the World Health Organization (WHO), the use of incorrect species is a threat to consumer safety. The samples used in this study consisted of the dried leaves, flowers and roots of 257 samples from 8 distinct species approved by the WHO for the production of medicinal herbs and sold in Brazilian markets. Identification of the samples in this study using DNA barcoding (matK, rbcL and ITS2 regions) revealed that the level of substitutions may be as high as 71%. Using qualitative and quantitative chemical analyses, this study identified situations in which the correct species was being sold, but the chemical compounds were not present. Even more troubling, some samples identified as substitutions using DNA barcoding contained the chemical compounds from the correct species at the minimum required concentration. This last situation may lead to the use of unknown species or species whose safety for human consumption remains unknown. This study concludes that DNA barcoding should be used in a complementary manner for species identification with chemical analyses to detect and quantify the required chemical compounds, thus improving the quality of this class of medicines. PMID:25978064

  9. Medicinal Plants Recommended by the World Health Organization: DNA Barcode Identification Associated with Chemical Analyses Guarantees Their Quality

    Science.gov (United States)

    Palhares, Rafael Melo; Gonçalves Drummond, Marcela; dos Santos Alves Figueiredo Brasil, Bruno; Pereira Cosenza, Gustavo; das Graças Lins Brandão, Maria; Oliveira, Guilherme

    2015-01-01

    Medicinal plants are used throughout the world, and the regulations defining their proper use, such as identification of the correct species and verification of the presence, purity and concentration of the required chemical compounds, are widely recognized. Herbal medicines are made from vegetal drugs, the processed products of medicinal species. These processed materials present a number of challenges in terms of botanical identification, and according to the World Health Organization (WHO), the use of incorrect species is a threat to consumer safety. The samples used in this study consisted of the dried leaves, flowers and roots of 257 samples from 8 distinct species approved by the WHO for the production of medicinal herbs and sold in Brazilian markets. Identification of the samples in this study using DNA barcoding (matK, rbcL and ITS2 regions) revealed that the level of substitutions may be as high as 71%. Using qualitative and quantitative chemical analyses, this study identified situations in which the correct species was being sold, but the chemical compounds were not present. Even more troubling, some samples identified as substitutions using DNA barcoding contained the chemical compounds from the correct species at the minimum required concentration. This last situation may lead to the use of unknown species or species whose safety for human consumption remains unknown. This study concludes that DNA barcoding should be used in a complementary manner for species identification with chemical analyses to detect and quantify the required chemical compounds, thus improving the quality of this class of medicines. PMID:25978064

  10. Genome-wide association and systems genetic analyses of residual feed intake, daily feed consumption, backfat and weight gain in pigs

    DEFF Research Database (Denmark)

    Do, Duy Ngoc; Ostersen, Tage; Strathe, Anders Bjerring;

    2014-01-01

    Feed efficiency is one of the major components determining costs of animal production. Residual feed intake (RFI) is defined as the difference between the observed and the expected feed intake given a certain production. Residual feed intake 1 (RFI1) was calculated based on regression of individu...... and mechanisms affecting RFI in pigs is lacking. The study aimed to identify genetic markers and candidate genes for RFI and its component traits as well as pathways associated with RFI in Danish Duroc boars by genome-wide associations and systems genetic analyses....

  11. Trans-ancestry meta-analyses identify rare and common variants associated with blood pressure and hypertension.

    Science.gov (United States)

    Surendran, Praveen; Drenos, Fotios; Young, Robin; Warren, Helen; Cook, James P; Manning, Alisa K; Grarup, Niels; Sim, Xueling; Barnes, Daniel R; Witkowska, Kate; Staley, James R; Tragante, Vinicius; Tukiainen, Taru; Yaghootkar, Hanieh; Masca, Nicholas; Freitag, Daniel F; Ferreira, Teresa; Giannakopoulou, Olga; Tinker, Andrew; Harakalova, Magdalena; Mihailov, Evelin; Liu, Chunyu; Kraja, Aldi T; Nielsen, Sune Fallgaard; Rasheed, Asif; Samuel, Maria; Zhao, Wei; Bonnycastle, Lori L; Jackson, Anne U; Narisu, Narisu; Swift, Amy J; Southam, Lorraine; Marten, Jonathan; Huyghe, Jeroen R; Stančáková, Alena; Fava, Cristiano; Ohlsson, Therese; Matchan, Angela; Stirrups, Kathleen E; Bork-Jensen, Jette; Gjesing, Anette P; Kontto, Jukka; Perola, Markus; Shaw-Hawkins, Susan; Havulinna, Aki S; Zhang, He; Donnelly, Louise A; Groves, Christopher J; Rayner, N William; Neville, Matt J; Robertson, Neil R; Yiorkas, Andrianos M; Herzig, Karl-Heinz; Kajantie, Eero; Zhang, Weihua; Willems, Sara M; Lannfelt, Lars; Malerba, Giovanni; Soranzo, Nicole; Trabetti, Elisabetta; Verweij, Niek; Evangelou, Evangelos; Moayyeri, Alireza; Vergnaud, Anne-Claire; Nelson, Christopher P; Poveda, Alaitz; Varga, Tibor V; Caslake, Muriel; de Craen, Anton J M; Trompet, Stella; Luan, Jian'an; Scott, Robert A; Harris, Sarah E; Liewald, David C M; Marioni, Riccardo; Menni, Cristina; Farmaki, Aliki-Eleni; Hallmans, Göran; Renström, Frida; Huffman, Jennifer E; Hassinen, Maija; Burgess, Stephen; Vasan, Ramachandran S; Felix, Janine F; Uria-Nickelsen, Maria; Malarstig, Anders; Reilly, Dermot F; Hoek, Maarten; Vogt, Thomas F; Lin, Honghuang; Lieb, Wolfgang; Traylor, Matthew; Markus, Hugh S; Highland, Heather M; Justice, Anne E; Marouli, Eirini; Lindström, Jaana; Uusitupa, Matti; Komulainen, Pirjo; Lakka, Timo A; Rauramaa, Rainer; Polasek, Ozren; Rudan, Igor; Rolandsson, Olov; Franks, Paul W; Dedoussis, George; Spector, Timothy D; Jousilahti, Pekka; Männistö, Satu; Deary, Ian J; Starr, John M; Langenberg, Claudia; Wareham, Nick J; Brown, Morris J; Dominiczak, Anna F; Connell, John M; Jukema, J Wouter; Sattar, Naveed; Ford, Ian; Packard, Chris J; Esko, Tõnu; Mägi, Reedik; Metspalu, Andres; de Boer, Rudolf A; van der Meer, Peter; van der Harst, Pim; Gambaro, Giovanni; Ingelsson, Erik; Lind, Lars; de Bakker, Paul I W; Numans, Mattijs E; Brandslund, Ivan; Christensen, Cramer; Petersen, Eva R B; Korpi-Hyövälti, Eeva; Oksa, Heikki; Chambers, John C; Kooner, Jaspal S; Blakemore, Alexandra I F; Franks, Steve; Jarvelin, Marjo-Riitta; Husemoen, Lise L; Linneberg, Allan; Skaaby, Tea; Thuesen, Betina; Karpe, Fredrik; Tuomilehto, Jaakko; Doney, Alex S F; Morris, Andrew D; Palmer, Colin N A; Holmen, Oddgeir Lingaas; Hveem, Kristian; Willer, Cristen J; Tuomi, Tiinamaija; Groop, Leif; Käräjämäki, AnneMari; Palotie, Aarno; Ripatti, Samuli; Salomaa, Veikko; Alam, Dewan S; Majumder, Abdulla Al Shafi; Di Angelantonio, Emanuele; Chowdhury, Rajiv; McCarthy, Mark I; Poulter, Neil; Stanton, Alice V; Sever, Peter; Amouyel, Philippe; Arveiler, Dominique; Blankenberg, Stefan; Ferrières, Jean; Kee, Frank; Kuulasmaa, Kari; Müller-Nurasyid, Martina; Veronesi, Giovanni; Virtamo, Jarmo; Deloukas, Panos; Elliott, Paul; Zeggini, Eleftheria; Kathiresan, Sekar; Melander, Olle; Kuusisto, Johanna; Laakso, Markku; Padmanabhan, Sandosh; Porteous, David J; Hayward, Caroline; Scotland, Generation; Collins, Francis S; Mohlke, Karen L; Hansen, Torben; Pedersen, Oluf; Boehnke, Michael; Stringham, Heather M; Frossard, Philippe; Newton-Cheh, Christopher; Tobin, Martin D; Nordestgaard, Børge Grønne; Caulfield, Mark J; Mahajan, Anubha; Morris, Andrew P; Tomaszewski, Maciej; Samani, Nilesh J; Saleheen, Danish; Asselbergs, Folkert W; Lindgren, Cecilia M; Danesh, John; Wain, Louise V; Butterworth, Adam S; Howson, Joanna M M; Munroe, Patricia B

    2016-10-01

    High blood pressure is a major risk factor for cardiovascular disease and premature death. However, there is limited knowledge on specific causal genes and pathways. To better understand the genetics of blood pressure, we genotyped 242,296 rare, low-frequency and common genetic variants in up to 192,763 individuals and used ∼155,063 samples for independent replication. We identified 30 new blood pressure- or hypertension-associated genetic regions in the general population, including 3 rare missense variants in RBM47, COL21A1 and RRAS with larger effects (>1.5 mm Hg/allele) than common variants. Multiple rare nonsense and missense variant associations were found in A2ML1, and a low-frequency nonsense variant in ENPEP was identified. Our data extend the spectrum of allelic variation underlying blood pressure traits and hypertension, provide new insights into the pathophysiology of hypertension and indicate new targets for clinical intervention.

  12. Correlation Analyses Between the Characteristic Times of Gradual Solar Energetic Particle Events and the Properties of Associated Coronal Mass Ejections

    Science.gov (United States)

    Pan, Z. H.; Wang, C. B.; Wang, Yuming; Xue, X. H.

    2011-06-01

    It is generally believed that gradual solar energetic particles (SEPs) are accelerated by shocks associated with coronal mass ejections (CMEs). Using an ice-cream cone model, the radial speed and angular width of 95 CMEs associated with SEP events during 1998 - 2002 are calculated from SOHO/LASCO observations. Then, we investigate the relationships between the kinematic properties of these CMEs and the characteristic times of the intensity-time profile of their accompanied SEP events observed at 1 AU. These characteristic times of SEP are i) the onset time from the accompanying CME eruption at the Sun to the SEP arrival at 1 AU, ii) the rise time from the SEP onset to the time when the SEP intensity is one-half of peak intensity, and iii) the duration over which the SEP intensity is within a factor of two of the peak intensity. It is found that the onset time has neither significant correlation with the radial speed nor with the angular width of the accompanying CME. For events that are poorly connected to the Earth, the SEP rise time and duration have no significant correlation with the radial speed and angular width of the associated CMEs. However, for events that are magnetically well connected to the Earth, the SEP rise time and duration have significantly positive correlations with the radial speed and angular width of the associated CMEs. This indicates that a CME event with wider angular width and higher speed may more easily drive a strong and wide shock near to the Earth-connected interplanetary magnetic field lines, may trap and accelerate particles for a longer time, and may lead to longer rise time and duration of the ensuing SEP event.

  13. Association of polypharmacy with fall-related fractures in older Taiwanese people: age- and gender-specific analyses

    OpenAIRE

    Pan, Hsueh-Hsing; Li, Chung-Yi; Chen, Tzeng-Ji; Su, Tung-ping; Wang, Kwua-Yun

    2014-01-01

    Objective To elucidate the associations between polypharmacy and age- and gender-specific risks of admission for fall-related fractures. Design Nested case–control study. Setting This analysis was randomly selected from all elderly beneficiaries in 2007–2008, and represents some 30% of the whole older insurers using Taiwan's National Health Insurance Research Database. Participants We identified 5933 cases newly admitted for fall-related fractures during 2007–2008, and 29 665 random controls ...

  14. Comprehensive Review of Genetic Association Studies and Meta-Analyses on miRNA Polymorphisms and Cancer Risk

    OpenAIRE

    Srivastava, Kshitij; Srivastava, Anvesha

    2012-01-01

    Background MicroRNAs (miRNAs) are small RNA molecules that regulate the expression of corresponding messenger RNAs (mRNAs). Variations in the level of expression of distinct miRNAs have been observed in the genesis, progression and prognosis of multiple human malignancies. The present study was aimed to investigate the association between four highly studied miRNA polymorphisms (mir-146a rs2910164, mir-196a2 rs11614913, mir-149 rs2292832 and mir-499 rs3746444) and cancer risk by using a two-s...

  15. Systems genetics of obesity in an F2 pig model by genome-wide association, genetic network and pathway analyses

    DEFF Research Database (Denmark)

    Kogelman, Lisette; Pant, Sameer Dinkar; Fredholm, Merete;

    2014-01-01

    Obesity is a complex condition with world-wide exponentially rising prevalence rates, linked with severe diseases like Type 2 Diabetes. Economic and welfare consequences have led to a raised interest in a better understanding of the biological and genetic background. To date, whole genome...... of obesity-related phenotypes and genotyped using the 60K SNP chip. Firstly, Genome Wide Association (GWA) analysis was performed on the Obesity Index to locate candidate genomic regions that were further validated using combined Linkage Disequilibrium Linkage Analysis and investigated by evaluation...

  16. Powerful bivariate genome-wide association analyses suggest the SOX6 gene influencing both obesity and osteoporosis phenotypes in males.

    Directory of Open Access Journals (Sweden)

    Yao-Zhong Liu

    Full Text Available BACKGROUND: Current genome-wide association studies (GWAS are normally implemented in a univariate framework and analyze different phenotypes in isolation. This univariate approach ignores the potential genetic correlation between important disease traits. Hence this approach is difficult to detect pleiotropic genes, which may exist for obesity and osteoporosis, two common diseases of major public health importance that are closely correlated genetically. PRINCIPAL FINDINGS: To identify such pleiotropic genes and the key mechanistic links between the two diseases, we here performed the first bivariate GWAS of obesity and osteoporosis. We searched for genes underlying co-variation of the obesity phenotype, body mass index (BMI, with the osteoporosis risk phenotype, hip bone mineral density (BMD, scanning approximately 380,000 SNPs in 1,000 unrelated homogeneous Caucasians, including 499 males and 501 females. We identified in the male subjects two SNPs in intron 1 of the SOX6 (SRY-box 6 gene, rs297325 and rs4756846, which were bivariately associated with both BMI and hip BMD, achieving p values of 6.82x10(-7 and 1.47x10(-6, respectively. The two SNPs ranked at the top in significance for bivariate association with BMI and hip BMD in the male subjects among all the approximately 380,000 SNPs examined genome-wide. The two SNPs were replicated in a Framingham Heart Study (FHS cohort containing 3,355 Caucasians (1,370 males and 1,985 females from 975 families. In the FHS male subjects, the two SNPs achieved p values of 0.03 and 0.02, respectively, for bivariate association with BMI and femoral neck BMD. Interestingly, SOX6 was previously found to be essential to both cartilage formation/chondrogenesis and obesity-related insulin resistance, suggesting the gene's dual role in both bone and fat. CONCLUSIONS: Our findings, together with the prior biological evidence, suggest the SOX6 gene's importance in co-regulation of obesity and osteoporosis.

  17. Genome-wide Association and Longitudinal Analyses Reveal Genetic Loci Linking Pubertal Height Growth, Pubertal Timing, and Childhood Adiposity

    DEFF Research Database (Denmark)

    Cousminer, Diana L; Berry, Diane J; Timpson, Nicholas J;

    2013-01-01

    adverse cardiometabolic health. The only gene so far associated with pubertal height growth, LIN28B, pleiotropically influences childhood growth, puberty, and cancer progression, pointing to shared underlying mechanisms.To discover genetic loci influencing pubertal height and growth and place them in......The pubertal height growth spurt is a distinctive feature of childhood growth reflecting both the central onset of puberty and local growth factors. While little is known about the underlying genetics, growth variability during puberty correlates with adult risks for hormone-dependent cancer and...

  18. Trans-ancestry meta-analyses identify rare and common variants associated with blood pressure and hypertension

    DEFF Research Database (Denmark)

    Surendran, Praveen; Drenos, Fotios; Young, Robin;

    2016-01-01

    High blood pressure is a major risk factor for cardiovascular disease and premature death. However, there is limited knowledge on specific causal genes and pathways. To better understand the genetics of blood pressure, we genotyped 242,296 rare, low-frequency and common genetic variants in up...... to 192,763 individuals and used ∼155,063 samples for independent replication. We identified 30 new blood pressure- or hypertension-associated genetic regions in the general population, including 3 rare missense variants in RBM47, COL21A1 and RRAS with larger effects (>1.5 mm Hg/allele) than common...

  19. Phylogenetic analyses of Podaxis specimens from Southern Africa reveal hidden diversity and new insights into associations with termites.

    Science.gov (United States)

    Conlon, Benjamin H; de Beer, Z Wilhelm; De Fine Licht, Henrik H; Aanen, Duur K; Poulsen, Michael

    2016-09-01

    Although frequently found on mounds of the grass-cutting termite genus Trinervitermes, virtually nothing is known about the natural history of the fungal genus Podaxis (Agaricaceae) nor why it associates with termite mounds. More than 40 species of this secotioid genus have been described since Linnaeus characterised the first species in 1771. However, taxonomic confusion arose when most of these species were reduced to synonymy with Podaxis pistillaris in 1933. Although a few more species have since been described, the vast majority of specimens worldwide are still treated as P. pistillaris. Using 45 fresh and herbarium specimens from Southern Africa, four from North America and one each from Ethiopia, and Kenya, we constructed the first comprehensive phylogeny of the genus. Four of the genotyped specimens were more than 100 y old. With the exception of the type specimen of Podaxis rugospora, all herbarium specimens were labelled as P. pistillaris or Podaxis sp. However, our data shows that the genus contains at least five well-supported clades with significant inter-clade differences in spore length, width and wall thickness, and fruiting body length, supporting that clades likely represent distinct Podaxis species. Certain clades consistently associate with termites while others appear entirely free-living. PMID:27567713

  20. Joint genetic and network analyses identify loci associated with root growth under NaCl stress in Arabidopsis thaliana.

    Science.gov (United States)

    Kobayashi, Yuriko; Sadhukhan, Ayan; Tazib, Tanveer; Nakano, Yuki; Kusunoki, Kazutaka; Kamara, Mohamed; Chaffai, Radhouane; Iuchi, Satoshi; Sahoo, Lingaraj; Kobayashi, Masatomo; Hoekenga, Owen A; Koyama, Hiroyuki

    2016-04-01

    Plants have evolved a series of tolerance mechanisms to saline stress, which perturbs physiological processes throughout the plant. To identify genetic mechanisms associated with salinity tolerance, we performed linkage analysis and genome-wide association study (GWAS) on maintenance of root growth of Arabidopsis thaliana in hydroponic culture with weak and severe NaCl toxicity. The top 200 single-nucleotide polymorphisms (SNPs) determined by GWAS could cumulatively explain approximately 70% of the variation observed at each stress level. The most significant SNPs were linked to the genes of ATP-binding cassette B10 and vacuolar proton ATPase A2. Several known salinity tolerance genes such as potassium channel KAT1 and calcium sensor SOS3 were also linked to SNPs in the top 200. In parallel, we constructed a gene co-expression network to independently verify that particular groups of genes work together to a common purpose. We identify molecular mechanisms to confer salt tolerance from both predictable and novel physiological sources and validate the utility of combined genetic and network analysis. Additionally, our study indicates that the genetic architecture of salt tolerance is responsive to the severity of stress. These gene datasets are a significant information resource for a following exploration of gene function. PMID:26667381

  1. Environmental Association Analyses Identify Candidates for Abiotic Stress Tolerance in Glycine soja, the Wild Progenitor of Cultivated Soybeans.

    Science.gov (United States)

    Anderson, Justin E; Kono, Thomas J Y; Stupar, Robert M; Kantar, Michael B; Morrell, Peter L

    2016-04-07

    Natural populations across a species range demonstrate population structure owing to neutral processes such as localized origins of mutations and migration limitations. Selection also acts on a subset of loci, contributing to local adaptation. An understanding of the genetic basis of adaptation to local environmental conditions is a fundamental goal in basic biological research. When applied to crop wild relatives, this same research provides the opportunity to identify adaptive genetic variation that may be used to breed for crops better adapted to novel or changing environments. The present study explores an ex situ conservation collection, the USDA germplasm collection, genotyped at 32,416 SNPs to identify population structure and test for associations with bioclimatic and biophysical variables in Glycine soja, the wild progenitor of Glycine max (soybean). Candidate loci were detected that putatively contribute to adaptation to abiotic stresses. The identification of potentially adaptive variants in this ex situ collection may permit a more targeted use of germplasm collections.

  2. Quantitative DNA methylation analyses reveal stage dependent DNA methylation and association to clinico-pathological factors in breast tumors

    International Nuclear Information System (INIS)

    Aberrant DNA methylation of regulatory genes has frequently been found in human breast cancers and correlated to clinical outcome. In the present study we investigate stage specific changes in the DNA methylation patterns in order to identify valuable markers to understand how these changes affect breast cancer progression. Quantitative DNA methylation analyses of 12 candidate genes ABCB1, BRCCA1, CDKN2A, ESR1, GSTP1, IGF2, MGMT, HMLH1, PPP2R2B, PTEN, RASSF1A and FOXC1 was performed by pyrosequencing a series of 238 breast cancer tissue samples from DCIS to invasive tumors stage I to IV. Significant differences in methylation levels between the DCIS and invasive stage II tumors were observed for six genes RASSF1A, CDKN2A, MGMT, ABCB1, GSTP1 and FOXC1. RASSF1A, ABCB1 and GSTP1 showed significantly higher methylation levels in late stage compared to the early stage breast carcinoma. Z-score analysis revealed significantly lower methylation levels in DCIS and stage I tumors compared with stage II, III and IV tumors. Methylation levels of PTEN, PPP2R2B, FOXC1, ABCB1 and BRCA1 were lower in tumors harboring TP53 mutations then in tumors with wild type TP53. Z-score analysis showed that TP53 mutated tumors had significantly lower overall methylation levels compared to tumors with wild type TP53. Methylation levels of RASSF1A, PPP2R2B, GSTP1 and FOXC1 were higher in ER positive vs. ER negative tumors and methylation levels of PTEN and CDKN2A were higher in HER2 positive vs. HER2 negative tumors. Z-score analysis also showed that HER2 positive tumors had significantly higher z-scores of methylation compared to the HER2 negative tumors. Univariate survival analysis identifies methylation status of PPP2R2B as significant predictor of overall survival and breast cancer specific survival. In the present study we report that the level of aberrant DNA methylation is higher in late stage compared with early stage of invasive breast cancers and DCIS for genes mentioned above

  3. Modeling seasonal leptospirosis transmission and its association with rainfall and temperature in Thailand using time-series and ARIMAX analyses

    Institute of Scientific and Technical Information of China (English)

    Sudarat Chadsuthi; Charin Modchang; Yongwimon Lenbury; Sopon Iamsirithaworn; Wannapong Triampo

    2012-01-01

    ABSTRACT Objective:To study the number of leptospirosis cases in relations to the seasonal pattern, and its association with climate factors.Methods:Time series analysis was used to study the time variations in the number of leptospirosis cases.TheAutoregressiveIntegratedMovingAverage (ARIMA) model was used in data curve fitting and predicting the next leptospirosis cases. Results:We found that the amount of rainfall was correlated to leptospirosis cases in both regions of interest, namely the northern and northeastern region ofThailand, while the temperature played a role in the northeastern region only.The use of multivariateARIMA(ARIMAX) model showed that factoring in rainfall(with an8 months lag) yields the best model for the northern region while the model, which factors in rainfall(with a10 months lag) and temperature(with an8 months lag) was the best for the northeastern region.Conclusions:The models are able to show the trend in leptospirosis cases and closely fit the recorded data in both regions.The models can also be used to predict the next seasonal peak quite accurately.

  4. Identification of Phosphorylated Cyclin-Dependent Kinase 1 Associated with Colorectal Cancer Survival Using Label-Free Quantitative Analyses

    Science.gov (United States)

    Tyan, Yu-Chang; Hsiao, Eric S. L.; Chu, Po-Chen; Lee, Chung-Ta; Lee, Jenq-Chang; Chen, Yi-Ming Arthur; Liao, Pao-Chi

    2016-01-01

    Colorectal cancer is the most common form of cancer in the world, and the five-year survival rate is estimated to be almost 90% in the early stages. Therefore, the identification of potential biomarkers to assess the prognosis of early stage colorectal cancer patients is critical for further clinical treatment. Dysregulated tyrosine phosphorylation has been found in several diseases that play a significant regulator of signaling in cellular pathways. In this study, this strategy was used to characterize the tyrosine phosphoproteome of colorectal cell lines with different progression abilities (SW480 and SW620). We identified a total of 280 phosphotyrosine (pTyr) peptides comprising 287 pTyr sites from 261 proteins. Label-free quantitative analysis revealed the differential level of a total of 103 pTyr peptides between SW480 and SW620 cells. We showed that cyclin-dependent kinase I (CDK1) pTyr15 level in SW480 cells was 3.3-fold greater than in SW620 cells, and these data corresponded with the label-free mass spectrometry-based proteomic quantification analysis. High level CDK1 pTyr15 was associated with prolonged disease-free survival for stage II colorectal cancer patients (n = 79). Taken together, our results suggest that the CDK1 pTyr15 protein is a potential indicator of the progression of colorectal cancer. PMID:27383761

  5. Multigenic Control of Pod Shattering Resistance in Chinese Rapeseed Germplasm Revealed by Genome-Wide Association and Linkage Analyses.

    Science.gov (United States)

    Liu, Jia; Wang, Jun; Wang, Hui; Wang, Wenxiang; Zhou, Rijin; Mei, Desheng; Cheng, Hongtao; Yang, Juan; Raman, Harsh; Hu, Qiong

    2016-01-01

    The majority of rapeseed cultivars shatter seeds upon maturity especially under hot-dry and windy conditions, reducing yield and gross margin return to growers. Here, we identified quantitative trait loci (QTL) for resistance to pod shatter in an unstructured diverse panel of 143 rapeseed accessions, and two structured populations derived from bi-parental doubled haploid (DH) and inter-mated (IF2) crosses derived from R1 (resistant to pod shattering) and R2 (prone to pod shattering) accessions. Genome-wide association analysis identified six significant QTL for resistance to pod shatter located on chromosomes A01, A06, A07, A09, C02, and C05. Two of the QTL, qSRI.A09 delimited with the SNP marker Bn-A09-p30171993 (A09) and qSRI.A06 delimited with the SNP marker Bn-A06-p115948 (A06) could be repeatedly detected across environments in a diversity panel, DH and IF2 populations, suggesting that at least two loci on chromosomes A06 and A09 were the main contributors to pod shatter resistance in Chinese germplasm. Significant SNP markers identified in this study especially those that appeared repeatedly across environments provide a cost-effective and an efficient method for introgression and pyramiding of favorable alleles for pod shatter resistance via marker-assisted selection in rapeseed improvement programs. PMID:27493651

  6. Mutation analyses and association studies to assess the role of the presenilin-associated rhomboid-like gene in Parkinson's disease.

    Science.gov (United States)

    Wüst, Richard; Maurer, Brigitte; Hauser, Kathrin; Woitalla, Dirk; Sharma, Manu; Krüger, Rejko

    2016-03-01

    Presenilin-associated rhomboid-like (PARL), a serine protease located in the inner mitochondrial membrane, has been shown to genetically interact and process PTEN-induced putative kinase a protein known for its critical role in mitochondrial homeostasis and early-onset forms of Parkinson's disease (PD). The identification of a PD-associated variant in the PARL gene (p.Ser77Asn) led us to assess the relevance of PARL for PD pathogenesis using a mutation screening of the coding sequences and adjacent intronic sequences. We investigated 3 single nucleotide polymorphisms (rs3792589, rs13091, and rs3732581), a synonymous base substitution (Leu79Leu) and the previously described p.Ser77Asn mutation, which were subsequently screened in more than 2000 patients and controls. Not detecting the p.Ser77Asn mutation in our cohort, nor a robust association between variations in the PARL gene and PD, the role of disease causing genetic variants in the PARL gene could not be further substantiated in our samples. Our findings indicate that PARL mutations are a rare cause of PD and genetic variants are neither strong nor common risk factors in PD. PMID:26778534

  7. Association of polypharmacy with fall-related fractures in older Taiwanese people: age- and gender-specific analyses

    Science.gov (United States)

    Pan, Hsueh-Hsing; Li, Chung-Yi; Chen, Tzeng-Ji; Su, Tung-Ping; Wang, Kwua-Yun

    2014-01-01

    Objective To elucidate the associations between polypharmacy and age- and gender-specific risks of admission for fall-related fractures. Design Nested case–control study. Setting This analysis was randomly selected from all elderly beneficiaries in 2007–2008, and represents some 30% of the whole older insurers using Taiwan's National Health Insurance Research Database. Participants We identified 5933 cases newly admitted for fall-related fractures during 2007–2008, and 29 665 random controls free from fracture. Primary and secondary outcome measures Polypharmacy was defined as the use of fall-related drugs of four or more categories of medications and prescribed related to fall within a 1-year period. Logistic regression models were employed to estimate the ORs and related 95% CIs. The interaction of polypharmacy with age and sex was assessed separately. Results Compared with those who consumed no category of medication, older people who consumed 1, 2, 3 and ≥4 categories of medications were all at significantly increased odds of developing fall-related fractures, with a significant dose–gradient pattern (β=0.7953; p for trend <0.0001). There were significant interactions between polypharmacy and age, but no significant interactions between polypharmacy and gender. The dose–gradient relationship between number of medications category and risk of fall-related fractures was more obvious in women than in men (β=0.1962 vs β=0.1873). Additionally, it was most evident in older people aged 75–84 years (β=0.2338). Conclusions This population-based study in Taiwan confirms the link between polypharmacy and increased risk of fall-related fractures in older people; and highlights that elderly women and older people aged 75–84 years will be the targeted participants for further prevention from fall-related fractures caused by polypharmacy. PMID:24682575

  8. Identification of proteasome subunit beta type 6 (PSMB6) associated with deltamethrin resistance in mosquitoes by proteomic and bioassay analyses.

    Science.gov (United States)

    Sun, Linchun; Ye, Yuting; Sun, Haibo; Yu, Jing; Zhang, Li; Sun, Yan; Zhang, Donghui; Ma, Lei; Shen, Bo; Zhu, Changliang

    2013-01-01

    Deltamethrin (DM) insecticides are currently being promoted worldwide for mosquito control, because of the high efficacy, low mammalian toxicity and less environmental impact. Widespread and improper use of insecticides induced resistance, which has become a major obstacle for the insect-borne disease management. Resistance development is a complex and dynamic process involving many genes. To better understand the possible molecular mechanisms involved in DM resistance, a proteomic approach was employed for screening of differentially expressed proteins in DM-susceptible and -resistant mosquito cells. Twenty-seven differentially expressed proteins were identified by two-dimensional electrophoresis (2-DE) and mass spectrometry (MS). Four members of the ubiquitin-proteasome system were significantly elevated in DM-resistant cells, suggesting that the ubiquitin-proteasome pathway may play an important role in DM resistance. Proteasome subunit beta type 6 (PSMB6) is a member of 20S proteasomal subunit family, which forms the proteolytic core of 26S proteasome. We used pharmaceutical inhibitor and molecular approaches to study the contributions of PSMB6 in DM resistance: the proteasome inhibitor MG-132 and bortezomib were used to suppress the proteasomal activity and siRNA was designed to block the function of PSMB6. The results revealed that both MG-132 and bortezomib increased the susceptibility in DM-resistant cells and resistance larvae. Moreover, PSMB6 knockdown decreased cellular viability under DM treatment. Taken together, our study indicated that PSMB6 is associated with DM resistance in mosquitoes and that proteasome inhibitors such as MG-132 or bortezomib are suitable for use as a DM synergist for vector control.

  9. Identification of proteasome subunit beta type 6 (PSMB6 associated with deltamethrin resistance in mosquitoes by proteomic and bioassay analyses.

    Directory of Open Access Journals (Sweden)

    Linchun Sun

    Full Text Available Deltamethrin (DM insecticides are currently being promoted worldwide for mosquito control, because of the high efficacy, low mammalian toxicity and less environmental impact. Widespread and improper use of insecticides induced resistance, which has become a major obstacle for the insect-borne disease management. Resistance development is a complex and dynamic process involving many genes. To better understand the possible molecular mechanisms involved in DM resistance, a proteomic approach was employed for screening of differentially expressed proteins in DM-susceptible and -resistant mosquito cells. Twenty-seven differentially expressed proteins were identified by two-dimensional electrophoresis (2-DE and mass spectrometry (MS. Four members of the ubiquitin-proteasome system were significantly elevated in DM-resistant cells, suggesting that the ubiquitin-proteasome pathway may play an important role in DM resistance. Proteasome subunit beta type 6 (PSMB6 is a member of 20S proteasomal subunit family, which forms the proteolytic core of 26S proteasome. We used pharmaceutical inhibitor and molecular approaches to study the contributions of PSMB6 in DM resistance: the proteasome inhibitor MG-132 and bortezomib were used to suppress the proteasomal activity and siRNA was designed to block the function of PSMB6. The results revealed that both MG-132 and bortezomib increased the susceptibility in DM-resistant cells and resistance larvae. Moreover, PSMB6 knockdown decreased cellular viability under DM treatment. Taken together, our study indicated that PSMB6 is associated with DM resistance in mosquitoes and that proteasome inhibitors such as MG-132 or bortezomib are suitable for use as a DM synergist for vector control.

  10. Cancer immunotherapy using novel tumor-associated antigenic peptides identified by genome-wide cDNA microarray analyses.

    Science.gov (United States)

    Nishimura, Yasuharu; Tomita, Yusuke; Yuno, Akira; Yoshitake, Yoshihiro; Shinohara, Masanori

    2015-05-01

    Recent genome-wide cDNA microarray analysis of gene expression profiles in comprehensive tumor types coupled with isolation of cancer tissues by laser-microbeam microdissection have revealed ideal tumor-associated antigens (TAAs) that are frequently overexpressed in various cancers including head and neck squamous cell cancer (HNSCC) and lung cancer, but not in most normal tissues except for testis, placenta, and fetal organs. Preclinical studies using HLA-transgenic mice and human T cells in vitro showed that TAA-derived CTL-epitope short peptides (SPs) are highly immunogenic and induce HLA-A2 or -A24-restricted CTLs. Based on the accumulated evidence, we carried out a phase II clinical trial of the TAA-SP vaccine in advanced 37 HNSCC patients. This study showed a significant induction of TAA-specific CTLs in the majority of patients without serious adverse effects. Importantly, clinical responses including a complete response were observed in this study. Another phase II clinical trial of therapeutic TAA-SP vaccine, designed to evaluate the ability of prevention of recurrence, is ongoing in HNSCC patients who have received curative operations. Further studies in human preclinical studies and in vivo studies using HLA class I transgenic mice showed TAA-derived long peptides (TAA-LPs) have the capacity to induce not only promiscuous HLA class II-restricted CD4(+) T helper type 1 cells but also tumor-specific CTLs through a cross-presentation mechanism. Moreover, we observed an augmentation of TAA-LP-specific T helper type 1 cell responses and tumor antigen-spreading in HNSCC patients vaccinated with TAA-SPs. This accumulated evidence suggests that therapeutic TAA-SPs and LPs vaccines may provide a promising cancer immunotherapy.

  11. Examination of Epigenetic and other Molecular Factors Associated with mda-9/Syntenin Dysregulation in Cancer Through Integrated Analyses of Public Genomic Datasets

    Science.gov (United States)

    Bacolod, Manny D.; Das, Swadesh K.; Sokhi, Upneet K.; Bradley, Steven; Fenstermacher, David A.; Pellecchia, Maurizio; Emdad, Luni; Sarkar, Devanand; Fisher, Paul B.

    2016-01-01

    mda-9/Syntenin (melanoma differentiation-associated gene 9) is a PDZ domain-containing, cancer invasion-related protein. In this study, we employed multiple integrated bioinformatic approaches to identify the probable epigenetic factors, molecular pathways, and functionalities associated with mda-9 dysregulation during cancer progression. Analyses of publicly available genomic data (e.g., expression, copy number, methylation) from TCGA, GEO, ENCODE, and Human Protein Atlas projects led to the following observations: a) mda-9 expression correlates with both copy number and methylation level of an intronic CpG site (cg17197774) located downstream of the CpG island, b) cg17197774 methylation is a likely prognostic marker in glioma, c) Among 22 cancer types, melanoma exhibits the highest mda-9 level, and lowest level of methylation at cg17197774, d) cg17197774 hypomehtylation is also associated with histone modifications (at the mda-9 locus) indicative of more active transcription, e) Using Gene Set Enrichment Analysis (GSEA), and the VIGOR (Virtual Gene Over-expression or Repression ) analytical scheme, we were able to predict mda-9’s association with extracellular matrix organization (e.g., MMPs, collagen, integrins), IGFBP2 and NF-κB signaling pathways, phospholipid metabolism, cytokines (e.g., interleukins), CTLA-4, and components of complement cascade pathways. Indeed, previous publications have shown that many of the aforementioned genes and pathways are associated with mda-9’s functionality. PMID:26093898

  12. Prospective association of childhood receptive vocabulary and conduct problems with self-reported adolescent delinquency: tests of mediation and moderation in sibling-comparison analyses.

    Science.gov (United States)

    Lahey, Benjamin B; D'Onofrio, Brian M; Van Hulle, Carol A; Rathouz, Paul J

    2014-11-01

    Associations among receptive vocabulary measured at 4-9 years, mother-reported childhood conduct problems at 4-9 years, and self-reported adolescent delinquency at 14-17 years were assessed using data from a prospective study of the offspring of a large U.S. nationally representative sample of women. A novel quasi-experimental strategy was used to rule out family-level confounding by estimating path-analytic associations within families in a sibling comparison design. This allowed simultaneous tests of the direct and indirect effects of receptive vocabulary and childhood conduct problems, and of their joint moderation, on adolescent delinquency without family-level environmental confounding. The significant association of receptive vocabulary with later adolescent delinquency was indirect, mediated by childhood conduct problems. Furthermore, a significant interaction between receptive vocabulary and childhood conduct problems reflected a steeper slope for the predictive association between childhood conduct problems and adolescent delinquency when receptive vocabulary scores were higher. These findings of significant indirect association were qualitatively identical in both population-level and within-family analyses, suggesting that they are not the result of family-level confounds.

  13. Disentangling the directions of associations between structural social capital and mental health: Longitudinal analyses of gender, civic engagement and depressive symptoms.

    Science.gov (United States)

    Landstedt, Evelina; Almquist, Ylva B; Eriksson, Malin; Hammarström, Anne

    2016-08-01

    The present paper analysed the directions of associations between individual-level structural social capital, in the form of civic engagement, and depressive symptoms across time from age 16-42 years in Swedish men and women. More specifically, we asked whether civic engagement was related to changes in depressive symptoms, if it was the other way around, or whether the association was bi-directional. This longitudinal study used data from a 26-year prospective cohort material of 1001 individuals in Northern Sweden (482 women and 519 men). Civic engagement was measured by a single-item question reflecting the level of engagement in clubs/organisations. Depressive symptoms were assessed by a composite index. Directions of associations were analysed by means of gender-separate cross-lagged structural equation models. Models were adjusted for parental social class, parental unemployment, parental health, and family type at baseline (age 16). Levels of both civic engagement and depressive symptoms were relatively stable across time. The model with the best fit to data showed that, in men, youth civic engagement was negatively associated with depressive symptoms in adulthood, thus supporting the hypothesis that involvement in social networks promotes health, most likely through provision of social and psychological support, perceived influence, and sense of belonging. Accordingly, interventions to promote civic engagement in young men could be a way to prevent poor mental health for men later on in life. No cross-lagged effects were found among women. We discuss this gender difference in terms of gendered experiences of civic engagement which in turn generate different meanings and consequences for men and women, such as civic engagement not being as positive for women's mental health as for that of men. We conclude that theories on structural social capital and interventions to facilitate civic engagement for health promoting purposes need to acknowledge gendered life

  14. Disentangling the directions of associations between structural social capital and mental health: Longitudinal analyses of gender, civic engagement and depressive symptoms.

    Science.gov (United States)

    Landstedt, Evelina; Almquist, Ylva B; Eriksson, Malin; Hammarström, Anne

    2016-08-01

    The present paper analysed the directions of associations between individual-level structural social capital, in the form of civic engagement, and depressive symptoms across time from age 16-42 years in Swedish men and women. More specifically, we asked whether civic engagement was related to changes in depressive symptoms, if it was the other way around, or whether the association was bi-directional. This longitudinal study used data from a 26-year prospective cohort material of 1001 individuals in Northern Sweden (482 women and 519 men). Civic engagement was measured by a single-item question reflecting the level of engagement in clubs/organisations. Depressive symptoms were assessed by a composite index. Directions of associations were analysed by means of gender-separate cross-lagged structural equation models. Models were adjusted for parental social class, parental unemployment, parental health, and family type at baseline (age 16). Levels of both civic engagement and depressive symptoms were relatively stable across time. The model with the best fit to data showed that, in men, youth civic engagement was negatively associated with depressive symptoms in adulthood, thus supporting the hypothesis that involvement in social networks promotes health, most likely through provision of social and psychological support, perceived influence, and sense of belonging. Accordingly, interventions to promote civic engagement in young men could be a way to prevent poor mental health for men later on in life. No cross-lagged effects were found among women. We discuss this gender difference in terms of gendered experiences of civic engagement which in turn generate different meanings and consequences for men and women, such as civic engagement not being as positive for women's mental health as for that of men. We conclude that theories on structural social capital and interventions to facilitate civic engagement for health promoting purposes need to acknowledge gendered life

  15. Analyses of expressed sequence tags in Neurospora reveal rapid evolution of genes associated with the early stages of sexual reproduction in fungi

    Directory of Open Access Journals (Sweden)

    Nygren Kristiina

    2012-11-01

    Full Text Available Abstract Background The broadly accepted pattern of rapid evolution of reproductive genes is primarily based on studies of animal systems, although several examples of rapidly evolving genes involved in reproduction are found in diverse additional taxa. In fungi, genes involved in mate recognition have been found to evolve rapidly. However, the examples are too few to draw conclusions on a genome scale. Results In this study, we performed microarray hybridizations between RNA from sexual and vegetative tissues of two strains of the heterothallic (self-sterile filamentous ascomycete Neurospora intermedia, to identify a set of sex-associated genes in this species. We aligned Expressed Sequence Tags (ESTs from sexual and vegetative tissue of N. intermedia to orthologs from three closely related species: N. crassa, N. discreta and N. tetrasperma. The resulting four-species alignments provided a dataset for molecular evolutionary analyses. Our results confirm a general pattern of rapid evolution of fungal sex-associated genes, compared to control genes with constitutive expression or a high relative expression during vegetative growth. Among the rapidly evolving sex-associated genes, we identified candidates that could be of importance for mating or fruiting-body development. Analyses of five of these candidate genes from additional species of heterothallic Neurospora revealed that three of them evolve under positive selection. Conclusions Taken together, our study represents a novel finding of a genome-wide pattern of rapid evolution of sex-associated genes in the fungal kingdom, and provides a list of candidate genes important for reproductive isolation in Neurospora.

  16. Integrative analyses of miRNA and proteomics identify potential biological pathways associated with onset of pulmonary fibrosis in the bleomycin rat model

    International Nuclear Information System (INIS)

    To determine miRNAs and their predicted target proteins regulatory networks which are potentially involved in onset of pulmonary fibrosis in the bleomycin rat model, we conducted integrative miRNA microarray and iTRAQ-coupled LC-MS/MS proteomic analyses, and evaluated the significance of altered biological functions and pathways. We observed that alterations of miRNAs and proteins are associated with the early phase of bleomycin-induced pulmonary fibrosis, and identified potential target pairs by using ingenuity pathway analysis. Using the data set of these alterations, it was demonstrated that those miRNAs, in association with their predicted target proteins, are potentially involved in canonical pathways reflective of initial epithelial injury and fibrogenic processes, and biofunctions related to induction of cellular development, movement, growth, and proliferation. Prediction of activated functions suggested that lung cells acquire proliferative, migratory, and invasive capabilities, and resistance to cell death especially in the very early phase of bleomycin-induced pulmonary fibrosis. The present study will provide new insights for understanding the molecular pathogenesis of idiopathic pulmonary fibrosis. - Highlights: • We analyzed bleomycin-induced pulmonary fibrosis in the rat. • Integrative analyses of miRNA microarray and proteomics were conducted. • We determined the alterations of miRNAs and their potential target proteins. • The alterations may control biological functions and pathways in pulmonary fibrosis. • Our result may provide new insights of pulmonary fibrosis

  17. Integrative analyses of miRNA and proteomics identify potential biological pathways associated with onset of pulmonary fibrosis in the bleomycin rat model

    Energy Technology Data Exchange (ETDEWEB)

    Fukunaga, Satoki [Department of Molecular Pathology, Osaka City University Graduate School of Medicine, 1-4-3 Asahi-machi, Abeno-ku, Osaka 545-8585 (Japan); Environmental Health Science Laboratory, Sumitomo Chemical Co., Ltd., 3-1-98 Kasugade-Naka, Konohana-ku, Osaka 554-8558 (Japan); Kakehashi, Anna [Department of Molecular Pathology, Osaka City University Graduate School of Medicine, 1-4-3 Asahi-machi, Abeno-ku, Osaka 545-8585 (Japan); Sumida, Kayo; Kushida, Masahiko; Asano, Hiroyuki [Environmental Health Science Laboratory, Sumitomo Chemical Co., Ltd., 3-1-98 Kasugade-Naka, Konohana-ku, Osaka 554-8558 (Japan); Gi, Min [Department of Molecular Pathology, Osaka City University Graduate School of Medicine, 1-4-3 Asahi-machi, Abeno-ku, Osaka 545-8585 (Japan); Wanibuchi, Hideki, E-mail: wani@med.osaka-cu.ac.jp [Department of Molecular Pathology, Osaka City University Graduate School of Medicine, 1-4-3 Asahi-machi, Abeno-ku, Osaka 545-8585 (Japan)

    2015-08-01

    To determine miRNAs and their predicted target proteins regulatory networks which are potentially involved in onset of pulmonary fibrosis in the bleomycin rat model, we conducted integrative miRNA microarray and iTRAQ-coupled LC-MS/MS proteomic analyses, and evaluated the significance of altered biological functions and pathways. We observed that alterations of miRNAs and proteins are associated with the early phase of bleomycin-induced pulmonary fibrosis, and identified potential target pairs by using ingenuity pathway analysis. Using the data set of these alterations, it was demonstrated that those miRNAs, in association with their predicted target proteins, are potentially involved in canonical pathways reflective of initial epithelial injury and fibrogenic processes, and biofunctions related to induction of cellular development, movement, growth, and proliferation. Prediction of activated functions suggested that lung cells acquire proliferative, migratory, and invasive capabilities, and resistance to cell death especially in the very early phase of bleomycin-induced pulmonary fibrosis. The present study will provide new insights for understanding the molecular pathogenesis of idiopathic pulmonary fibrosis. - Highlights: • We analyzed bleomycin-induced pulmonary fibrosis in the rat. • Integrative analyses of miRNA microarray and proteomics were conducted. • We determined the alterations of miRNAs and their potential target proteins. • The alterations may control biological functions and pathways in pulmonary fibrosis. • Our result may provide new insights of pulmonary fibrosis.

  18. Associations between food and beverage groups and major diet-related chronic diseases: an exhaustive review of pooled/meta-analyses and systematic reviews.

    Science.gov (United States)

    Fardet, Anthony; Boirie, Yves

    2014-12-01

    Associations between food and beverage groups and the risk of diet-related chronic disease (DRCD) have been the subject of intensive research in preventive nutrition. Pooled/meta-analyses and systematic reviews (PMASRs) aim to better characterize these associations. To date, however, there has been no attempt to synthesize all PMASRs that have assessed the relationship between food and beverage groups and DRCDs. The objectives of this review were to aggregate PMASRs to obtain an overview of the associations between food and beverage groups (n = 17) and DRCDs (n = 10) and to establish new directions for future research needs. The present review of 304 PMASRs published between 1950 and 2013 confirmed that plant food groups are more protective than animal food groups against DRCDs. Within plant food groups, grain products are more protective than fruits and vegetables. Among animal food groups, dairy/milk products have a neutral effect on the risk of DRCDs, while red/processed meats tend to increase the risk. Among beverages, tea was the most protective and soft drinks the least protective against DRCDs. For two of the DRCDs examined, sarcopenia and kidney disease, no PMASR was found. Overweight/obesity, type 2 diabetes, and various types of cardiovascular disease and cancer accounted for 289 of the PMASRs. There is a crucial need to further study the associations between food and beverage groups and mental health, skeletal health, digestive diseases, liver diseases, kidney diseases, obesity, and type 2 diabetes. PMID:25406801

  19. γ-PGA additive decreasing soil water infiltration and improving water holding capacity%添加γ-聚谷氨酸减少土壤水分深层渗漏提高持水能力

    Institute of Scientific and Technical Information of China (English)

    史文娟; 梁嘉平; 陶汪海; 谭帅; 王全九

    2015-01-01

    γ-聚谷氨酸(Poly-γ-glutamic acid,γ-PGA)是一种高分子聚合物,具有超强的吸水能力和生物降解性。为探明γ-PGA在土壤改良方面的应用及对土壤水分运动的影响,该文基于室内垂直一维入渗土柱试验,研究了不同γ-PGA施量配比(0、0.5%、1%、2%、4%)对土壤水分入渗及持水特性的影响。结果表明:与对照组相比,添加4%的γ-PGA的累积入渗量、入渗率和湿润锋分别减少了57.95%、53.89%、59.58%;四种入渗模型参数的模拟结果显示,与对照组相比,随着γ-PGA施量的增加,Kostiakov公式中的经验系数从0.808减小到0.538,经验指数从0.530增大到0.623;Philip入渗公式中的吸渗率从0.704减小到0.292;Green-Ampt公式中,饱和导水率从0.0043减小到0.0011 cm/min,湿润区有效的土壤水扩散率从1.19减小到0.16 cm2/min,湿润锋处的土壤水吸力无明显变化;垂直一维入渗代数模型中,饱和导水率从0.0044减小到0.001 cm/min,非饱和土壤吸力分配系数和土壤水分特征曲线和非饱和导水率综合形状系数均无明显变化趋势。土壤的持水特性结果表明:随着γ-PGA施量的增加,土壤饱和含水率增加,且与对照相比,表层土壤(0~10 cm土层)的含水率呈显著增加趋势,深层土壤(≥10~40 cm土层)的含水率则呈减小趋势。同时,湿润土层的厚度逐渐减小,说明γ-PGA 不仅可增强土壤的持水能力,而且还可改变土壤剖面水分的分布形态,使更多水分蓄积在作物根区土层区域。该研究为γ-PGA的田间土壤改良及应用提供了理论支撑。%Poly-γ-glutamic acid (γ-PGA) is a natural and water-soluble polymer, which consisted of D-glutamic acid and L-glutamic acid monomer linked by amide bonds between theα-amino and theγ-carboxylic acid functional groups, andγ-PGA is easily biodegradable and its degradation products are nontoxic in the

  20. LA GESTION ASSOCIATIVE DE LA PÊCHE EN FRANCE : UNE ANALYSE ÉCONOMIQUE À PARTIR DU CAS DES SALMONIDÉS

    Directory of Open Access Journals (Sweden)

    LE GOFFE P.

    2004-07-01

    Full Text Available L’analyse économique et l’examen des quelques données empiriques disponibles en France incitent à se demander si la gestion associative permet de tirer suffisamment de bien-être de la pêche de loisir en eau douce. Notre analyse s’appuie sur le cas des salmonidés. D’une part, l’effort de pêche est probablement trop important sur les bons parcours faciles d’accès, ce qui peut entraîner des pertes de bien-être dues à la congestion. D’autre part, les propriétaires riverains ne sont pas suffisamment incités à améliorer la qualité de l’environnement, alors que les pêcheurs ont un consentement à payer pour des améliorations. Ces inefficacités s’expliquent par la conjonction de trois phénomènes. Tout d’abord, les droits de propriété, privés, sont atténués par des dispositions législatives. Ensuite, les associations ne contrôlent pas suffisamment l’effort de pêche individuel et collectif. Finalement, les politiques halieutiques sont centrées sur la protection de la ressource et sont, bien que nécessaires, insuffisantes pour maximiser la rente sociale tirée de la pêche. La régulation de l’effort de pêche et la négociation de certains services environnementaux sur la base du principe bénéficiaire-payeur permettraient d’améliorer le bien-être collectif. Des tarifs sociaux permettraient de maintenir l’équité dans l’accès.

  1. A critical update on endothelial nitric oxide synthase gene variations in women with idiopathic recurrent spontaneous abortion: genetic association study, systematic review and meta-analyses.

    Science.gov (United States)

    Pereza, N; Peterlin, B; Volk, M; Kapović, M; Ostojić, S

    2015-05-01

    A number of case-control studies investigated the association between idiopathic recurrent spontaneous abortion (IRSA) and variations in the gene encoding endothelial nitric oxide synthase (NOS3), but yielded contradictory results. Our aim was to test the association of the NOS3 variable number of tandem repeats (VNTR) in intron 4 and +894 G/T single-nucleotide polymorphism (SNP) with IRSA in Slovenian women (148 IRSA and 149 control women), conduct a systematic review of literature on the association between NOS3 gene variations and IRSA, and perform meta-analyses of studies that met the inclusion criteria, defined by virtue of the European Society for Human Reproduction and Embryology evidence-based guidelines for recurrent spontaneous abortion. Genotyping was performed using PCR and restriction fragment length polymorphism methods. The systematic review of literature (English language) was conducted using PubMed and Scopus databases, to 1 November 2014. We determined no association of IRSA with the VNTR in intron 4 and +894 G/T SNP in Slovenian women. Furthermore, 16 case-control studies were identified on the association between 15 NOS3 gene variations and IRSA. However, significant inconsistencies exist in the selection criteria of patients and controls between studies. The meta-analysis of VNTR in intron 4 was performed on five studies (894 patients, 944 controls), whereas the meta-analysis of +894 G/T SNP included six studies (1111 patients, 1121 controls). The association with IRSA was significant for the +894 G/T SNP under the dominant genetic model (GT+TT versus GG) based on fixed (odds ratio (OR) = 1.54, 95% confidence interval (CI) = 1.28-1.86, P = <0.01) and random effects models (OR = 1.54, 95% CI = 1.03-2.31, P = 0.03). In conclusion, the GT and TT genotypes of the +894 G/T SNP in women might contribute to a predisposition to IRSA. Additional genetic association and functional studies in different populations with larger numbers of participants and a

  2. Association between forgone care and household income among the elderly in five Western European countries – analyses based on survey data from the SHARE-study

    Directory of Open Access Journals (Sweden)

    Stirbu Irina

    2009-03-01

    Full Text Available Abstract Background Studies on the association between access to health care and household income have rarely included an assessment of 'forgone care', but this indicator could add to our understanding of the inverse care law. We hypothesize that reporting forgone care is more prevalent in low income groups. Methods The study is based on the 'Survey of Health, Ageing and Retirement in Europe (SHARE', focusing on the non-institutionalized population aged 50 years or older. Data are included from France, Germany, Greece, Italy and Sweden. The dependent variable is assessed by the following question: During the last twelve months, did you forgo any types of care because of the costs you would have to pay, or because this care was not available or not easily accessible? The main independent variable is household income, adjusted for household size and split into quintiles, calculating the quintile limits for each country separately. Information on age, sex, self assessed health and chronic disease is included as well. Logistic regression models were used for the multivariate analyses. Results The overall level of forgone care differs considerably between the five countries (e.g. about 10 percent in Greece and 6 percent in Sweden. Low income groups report forgone care more often than high income groups. This association can also be found in analyses restricted to the subsample of persons with chronic disease. Associations between forgone care and income are particularly strong in Germany and Greece. Taking the example of Germany, forgone care in the lowest income quintile is 1.98 times (95% CI: 1.08–3.63 as high as in the highest income quintile. Conclusion Forgone care should be reduced even if it is not justified by an 'objective' need for health care, as it could be an independent stressor in its own right, and as patient satisfaction is a strong predictor of compliance. These efforts should focus on population groups with particularly high

  3. Gene network analyses of first service conception in Brangus heifers: use of genome and trait associations, hypothalamic-transcriptome information, and transcription factors.

    Science.gov (United States)

    Fortes, M R S; Snelling, W M; Reverter, A; Nagaraj, S H; Lehnert, S A; Hawken, R J; DeAtley, K L; Peters, S O; Silver, G A; Rincon, G; Medrano, J F; Islas-Trejo, A; Thomas, M G

    2012-09-01

    Measures of heifer fertility are economically relevant traits for beef production systems and knowledge of candidate genes could be incorporated into future genomic selection strategies. Ten traits related to growth and fertility were measured in 890 Brangus heifers (3/8 Brahman × 5/8 Angus, from 67 sires). These traits were: BW and hip height adjusted to 205 and 365 d of age, postweaning ADG, yearling assessment of carcass traits (i.e., back fat thickness, intramuscular fat, and LM area), as well as heifer pregnancy and first service conception (FSC). These fertility traits were collected from controlled breeding seasons initiated with estrous synchronization and AI targeting heifers to calve by 24 mo of age. The BovineSNP50 BeadChip was used to ascertain 53,692 SNP genotypes for ∼802 heifers. Associations of genotypes and phenotypes were performed and SNP effects were estimated for each trait. Minimally associated SNP (P < 0.05) and their effects across the 10 traits formed the basis for an association weight matrix and its derived gene network related to FSC (57.3% success and heritability = 0.06 ± 0.05). These analyses yielded 1,555 important SNP, which inferred genes linked by 113,873 correlations within a network. Specifically, 1,386 SNP were nodes and the 5,132 strongest correlations (|r| ≥ 0.90) were edges. The network was filtered with genes queried from a transcriptome resource created from deep sequencing of RNA (i.e., RNA-Seq) from the hypothalamus of a prepubertal and a postpubertal Brangus heifer. The remaining hypothalamic-influenced network contained 978 genes connected by 2,560 edges or predicted gene interactions. This hypothalamic gene network was enriched with genes involved in axon guidance, which is a pathway known to influence pulsatile release of LHRH. There were 5 transcription factors with 21 or more connections: ZMAT3, STAT6, RFX4, PLAGL1, and NR6A1 for FSC. The SNP that identified these genes were intragenic and were on chromosomes

  4. Genome-wide analyses of radioresistance-associated miRNA expression profile in nasopharyngeal carcinoma using next generation deep sequencing.

    Directory of Open Access Journals (Sweden)

    Guo Li

    Full Text Available BACKGROUND: Rapidly growing evidence suggests that microRNAs (miRNAs are involved in a wide range of cancer malignant behaviours including radioresistance. Therefore, the present study was designed to investigate miRNA expression patterns associated with radioresistance in NPC. METHODS: The differential expression profiles of miRNAs and mRNAs associated with NPC radioresistance were constructed. The predicted target mRNAs of miRNAs and their enriched signaling pathways were analyzed via biological informatical algorithms. Finally, partial miRNAs and pathways-correlated target mRNAs were validated in two NPC radioreisitant cell models. RESULTS: 50 known and 9 novel miRNAs with significant difference were identified, and their target mRNAs were narrowed down to 53 nasopharyngeal-/NPC-specific mRNAs. Subsequent KEGG analyses demonstrated that the 53 mRNAs were enriched in 37 signaling pathways. Further qRT-PCR assays confirmed 3 down-regulated miRNAs (miR-324-3p, miR-93-3p and miR-4501, 3 up-regulated miRNAs (miR-371a-5p, miR-34c-5p and miR-1323 and 2 novel miRNAs. Additionally, corresponding alterations of pathways-correlated target mRNAs were observed including 5 up-regulated mRNAs (ICAM1, WNT2B, MYC, HLA-F and TGF-β1 and 3 down-regulated mRNAs (CDH1, PTENP1 and HSP90AA1. CONCLUSIONS: Our study provides an overview of miRNA expression profile and the interactions between miRNA and their target mRNAs, which will deepen our understanding of the important roles of miRNAs in NPC radioresistance.

  5. Gene network analyses of first service conception in Brangus heifers: use of genome and trait associations, hypothalamic-transcriptome information, and transcription factors.

    Science.gov (United States)

    Fortes, M R S; Snelling, W M; Reverter, A; Nagaraj, S H; Lehnert, S A; Hawken, R J; DeAtley, K L; Peters, S O; Silver, G A; Rincon, G; Medrano, J F; Islas-Trejo, A; Thomas, M G

    2012-09-01

    Measures of heifer fertility are economically relevant traits for beef production systems and knowledge of candidate genes could be incorporated into future genomic selection strategies. Ten traits related to growth and fertility were measured in 890 Brangus heifers (3/8 Brahman × 5/8 Angus, from 67 sires). These traits were: BW and hip height adjusted to 205 and 365 d of age, postweaning ADG, yearling assessment of carcass traits (i.e., back fat thickness, intramuscular fat, and LM area), as well as heifer pregnancy and first service conception (FSC). These fertility traits were collected from controlled breeding seasons initiated with estrous synchronization and AI targeting heifers to calve by 24 mo of age. The BovineSNP50 BeadChip was used to ascertain 53,692 SNP genotypes for ∼802 heifers. Associations of genotypes and phenotypes were performed and SNP effects were estimated for each trait. Minimally associated SNP (P Brangus heifer. The remaining hypothalamic-influenced network contained 978 genes connected by 2,560 edges or predicted gene interactions. This hypothalamic gene network was enriched with genes involved in axon guidance, which is a pathway known to influence pulsatile release of LHRH. There were 5 transcription factors with 21 or more connections: ZMAT3, STAT6, RFX4, PLAGL1, and NR6A1 for FSC. The SNP that identified these genes were intragenic and were on chromosomes 1, 5, 9, and 11. Chromosome 5 harbored both STAT6 and RFX4. The large number of interactions and genes observed with network analyses of multiple sources of genomic data (i.e., GWAS and RNA-Seq) support the concept of FSC being a polygenic trait. PMID:22739780

  6. Associations of indoor carbon dioxide concentrations and environmental susceptibilities with mucous membrane and lower respiratory building related symptoms in the BASE study: Analyses of the 100 building dataset

    Energy Technology Data Exchange (ETDEWEB)

    Erdmann, Christine A.; Apte, Michael G.

    2003-09-01

    Using the US EPA 100 office-building BASE Study dataset, they conducted multivariate logistic regression analyses to quantify the relationship between indoor CO{sub 2} concentrations (dCO{sub 2}) and mucous membrane (MM) and lower respiratory system (LResp) building related symptoms, adjusting for age, sex, smoking status, presence of carpet in workspace, thermal exposure, relative humidity, and a marker for entrained automobile exhaust. In addition, they tested the hypothesis that certain environmentally-mediated health conditions (e.g., allergies and asthma) confer increased susceptibility to building related symptoms within office buildings. Adjusted odds ratios (ORs) for statistically significant, dose-dependent associations (p < 0.05) for dry eyes, sore throat, nose/sinus congestion, and wheeze symptoms with 100 ppm increases in dCO{sub 2} ranged from 1.1 to 1.2. These results suggest that increases in the ventilation rates per person among typical office buildings will, on average, reduce the prevalence of several building related symptoms by up to 70%, even when these buildings meet the existing ASHRAE ventilation standards for office buildings. Building occupants with certain environmentally-mediated health conditions are more likely to experience building related symptoms than those without these conditions (statistically significant ORs ranged from 2 to 11).

  7. Associations between retinol-binding protein 4 and cardiometabolic risk factors and subclinical atherosclerosis in recently postmenopausal women: cross-sectional analyses from the KEEPS study

    Directory of Open Access Journals (Sweden)

    Huang Gary

    2012-07-01

    Full Text Available Abstract Background The published literature regarding the relationships between retinol-binding protein 4 (RBP4 and cardiometabolic risk factors and subclinical atherosclerosis is conflicting, likely due, in part, to limitations of frequently used RBP4 assays. Prior large studies have not utilized the gold-standard western blot analysis of RBP4 levels. Methods Full-length serum RBP4 levels were measured by western blot in 709 postmenopausal women screened for the Kronos Early Estrogen Prevention Study. Cross-sectional analyses related RBP4 levels to cardiometabolic risk factors, carotid artery intima-media thickness (CIMT, and coronary artery calcification (CAC. Results The mean age of women was 52.9 (± 2.6 years, and the median RBP4 level was 49.0 (interquartile range 36.9-61.5 μg/mL. Higher RBP4 levels were weakly associated with higher triglycerides (age, race, and smoking-adjusted partial Spearman correlation coefficient = 0.10; P = 0.01, but were unrelated to blood pressure, cholesterol, C-reactive protein, glucose, insulin, and CIMT levels (all partial Spearman correlation coefficients ≤0.06, P > 0.05. Results suggested a curvilinear association between RBP4 levels and CAC, with women in the bottom and upper quartiles of RBP4 having higher odds of CAC (odds ratio [95% confidence interval] 2.10 [1.07-4.09], 2.00 [1.02-3.92], 1.64 [0.82-3.27] for the 1st, 3rd, and 4th RBP4 quartiles vs. the 2nd quartile. However, a squared RBP4 term in regression modeling was non-significant (P = 0.10. Conclusions In these healthy, recently postmenopausal women, higher RBP4 levels were weakly associated with elevations in triglycerides and with CAC, but not with other risk factors or CIMT. These data using the gold standard of RBP4 methodology only weakly support the possibility that perturbations in RBP4 homeostasis may be an additional risk factor for subclinical coronary atherosclerosis. Trial registration ClinicalTrials.gov number NCT

  8. Systems Genetic Analyses Highlight a TGFβ-FOXO3 Dependent Striatal Astrocyte Network Conserved across Species and Associated with Stress, Sleep, and Huntington’s Disease

    Science.gov (United States)

    Scarpa, Joseph R.; Jiang, Peng; Losic, Bojan; Readhead, Ben; Dudley, Joel T.; Vitaterna, Martha H.; Turek, Fred W.

    2016-01-01

    Recent systems-based analyses have demonstrated that sleep and stress traits emerge from shared genetic and transcriptional networks, and clinical work has elucidated the emergence of sleep dysfunction and stress susceptibility as early symptoms of Huntington's disease. Understanding the biological bases of these early non-motor symptoms may reveal therapeutic targets that prevent disease onset or slow disease progression, but the molecular mechanisms underlying this complex clinical presentation remain largely unknown. In the present work, we specifically examine the relationship between these psychiatric traits and Huntington's disease (HD) by identifying striatal transcriptional networks shared by HD, stress, and sleep phenotypes. First, we utilize a systems-based approach to examine a large publicly available human transcriptomic dataset for HD (GSE3790 from GEO) in a novel way. We use weighted gene coexpression network analysis and differential connectivity analyses to identify transcriptional networks dysregulated in HD, and we use an unbiased ranking scheme that leverages both gene- and network-level information to identify a novel astrocyte-specific network as most relevant to HD caudate. We validate this result in an independent HD cohort. Next, we computationally predict FOXO3 as a regulator of this network, and use multiple publicly available in vitro and in vivo experimental datasets to validate that this astrocyte HD network is downstream of a signaling pathway important in adult neurogenesis (TGFβ-FOXO3). We also map this HD-relevant caudate subnetwork to striatal transcriptional networks in a large (n = 100) chronically stressed (B6xA/J)F2 mouse population that has been extensively phenotyped (328 stress- and sleep-related measurements), and we show that this striatal astrocyte network is correlated to sleep and stress traits, many of which are known to be altered in HD cohorts. We identify causal regulators of this network through Bayesian network

  9. Systems Genetic Analyses Highlight a TGFβ-FOXO3 Dependent Striatal Astrocyte Network Conserved across Species and Associated with Stress, Sleep, and Huntington's Disease.

    Science.gov (United States)

    Scarpa, Joseph R; Jiang, Peng; Losic, Bojan; Readhead, Ben; Gao, Vance D; Dudley, Joel T; Vitaterna, Martha H; Turek, Fred W; Kasarskis, Andrew

    2016-07-01

    Recent systems-based analyses have demonstrated that sleep and stress traits emerge from shared genetic and transcriptional networks, and clinical work has elucidated the emergence of sleep dysfunction and stress susceptibility as early symptoms of Huntington's disease. Understanding the biological bases of these early non-motor symptoms may reveal therapeutic targets that prevent disease onset or slow disease progression, but the molecular mechanisms underlying this complex clinical presentation remain largely unknown. In the present work, we specifically examine the relationship between these psychiatric traits and Huntington's disease (HD) by identifying striatal transcriptional networks shared by HD, stress, and sleep phenotypes. First, we utilize a systems-based approach to examine a large publicly available human transcriptomic dataset for HD (GSE3790 from GEO) in a novel way. We use weighted gene coexpression network analysis and differential connectivity analyses to identify transcriptional networks dysregulated in HD, and we use an unbiased ranking scheme that leverages both gene- and network-level information to identify a novel astrocyte-specific network as most relevant to HD caudate. We validate this result in an independent HD cohort. Next, we computationally predict FOXO3 as a regulator of this network, and use multiple publicly available in vitro and in vivo experimental datasets to validate that this astrocyte HD network is downstream of a signaling pathway important in adult neurogenesis (TGFβ-FOXO3). We also map this HD-relevant caudate subnetwork to striatal transcriptional networks in a large (n = 100) chronically stressed (B6xA/J)F2 mouse population that has been extensively phenotyped (328 stress- and sleep-related measurements), and we show that this striatal astrocyte network is correlated to sleep and stress traits, many of which are known to be altered in HD cohorts. We identify causal regulators of this network through Bayesian network

  10. Coseismic landsliding associated with the 2015 April 25th Gorkha earthquake, Nepal

    Science.gov (United States)

    Clark, Marin; Zekkos, Dimitrios; West, A. Joshua; Gallen, Sean; Roback, Kevin; Chamlagain, Deepak; Athanasopoulos-Zekkos, Adda; Greenwood, William; Bateman, Julie; Partenio, Michael; Li, Gen; Cook, Kristen; Godt, Jonathan; Howat, Ian; Morin, Paul

    2016-04-01

    The characteristics of earthquake-triggered landslides have the potential to inform us about the ground motions during large earthquakes and the rock properties of the near surface environment. From the recent Mw7.8 2015 Gorkha earthquake in Nepal, we use satellite imagery to identify over 20,000 landslides that are associated with the main shock. While most landslides are located on steep hillslopes, we also present field measurements of alluvial terraces that have either failed or remained stable during the earthquake. We show how both hillslope and terrace failures can be used to better understand the earthquake. These local, site-specific surveys and analyses of alluvial terraces can be used to constrain co-seismic peak ground acceleration (PGA) and large landslide inventories can be used to gain insight into regional patterns of strong ground motion. Our regional landslide mapping reveals two principal patterns: (1) landslides are concentrated in the steep Greater Himalaya in the north, with conspicuously fewer landslides in the moderately-steep Lesser Himalaya in the south, and (2) within the Greater Himalaya, landslide density increases from west to east across the rupture area. We have compared our observed map of landslide occurrence to predictions from forward models using hillslope angles, average rock strength, and PGA estimated from ground motion prediction equations (GMPE). The higher concentration of landslides in the Greater Himalaya compared to the Lesser Himalaya can be predicted by the models and explained by the steeper topography of the Greater Himalaya. However, these forward models do not reproduce the east to west variation in observed landslide density, which is lower than model predictions near the epicenter, and greater than model predictions toward the eastern limit of the rupture. From limit equilibrium stability analysis of both failed and stable fluvial terraces, we constrain local PGA values in the eastern region of dense landsliding

  11. In silico genomic analyses reveal three distinct lineages of Escherichia coli O157:H7, one of which is associated with hyper-virulence

    Directory of Open Access Journals (Sweden)

    Karmali Mohamed A

    2009-06-01

    Full Text Available Abstract Background Many approaches have been used to study the evolution, population structure and genetic diversity of Escherichia coli O157:H7; however, observations made with different genotyping systems are not easily relatable to each other. Three genetic lineages of E. coli O157:H7 designated I, II and I/II have been identified using octamer-based genome scanning and microarray comparative genomic hybridization (mCGH. Each lineage contains significant phenotypic differences, with lineage I strains being the most commonly associated with human infections. Similarly, a clade of hyper-virulent O157:H7 strains implicated in the 2006 spinach and lettuce outbreaks has been defined using single-nucleotide polymorphism (SNP typing. In this study an in silico comparison of six different genotyping approaches was performed on 19 E. coli genome sequences from 17 O157:H7 strains and single O145:NM and K12 MG1655 strains to provide an overall picture of diversity of the E. coli O157:H7 population, and to compare genotyping methods for O157:H7 strains. Results In silico determination of lineage, Shiga-toxin bacteriophage integration site, comparative genomic fingerprint, mCGH profile, novel region distribution profile, SNP type and multi-locus variable number tandem repeat analysis type was performed and a supernetwork based on the combination of these methods was produced. This supernetwork showed three distinct clusters of strains that were O157:H7 lineage-specific, with the SNP-based hyper-virulent clade 8 synonymous with O157:H7 lineage I/II. Lineage I/II/clade 8 strains clustered closest on the supernetwork to E. coli K12 and E. coli O55:H7, O145:NM and sorbitol-fermenting O157 strains. Conclusion The results of this study highlight the similarities in relationships derived from multi-locus genome sampling methods and suggest a "common genotyping language" may be devised for population genetics and epidemiological studies. Future genotyping

  12. Psicoterapia de grupo de apoio multifamiliar (PGA em hospital-dia (HD psiquiátrico Multifamily support group psychotherapy for relatives (SGR in a psychiatric day hospital program (DH

    Directory of Open Access Journals (Sweden)

    José Onildo B. Contel

    1999-12-01

    Full Text Available INTRODUÇÃO: O familiar é a ponte, entre o ambiente da casa do paciente e o ambiente terapêutico do hospital-dia (HD, onde o paciente permanece das 7h30 às 15h30, de segunda a sexta-feira. A complexidade para a integração do exercício dessa tarefa e suas conseqüências para o tratamento em HD, levou-nos a criar a Psicoterapia de Grupo de Apoio multifamiliar (PGA para facilitar o exame das vissicitudes desta via de duas mãos entre a residência e o HD. OBJETIVOS: As características, liderança e fatores terapêuticos de Yalom nessa PGA serão objetos do presente trabalho MÉTODO: A PGA é um grupo aberto com 1 h e 15 minutos de duração, de freqüência semanal e com coordenação, em coterapia, de um psicoterapeuta de grupo e de uma enfermeira psiquiátrica. RESULTADOS E DISCUSSÃO: Os resultados foram obtidos pelo exame de 20 grupos sucessivos, tanto após cada sessão, pelos coterapeutas e observador mudo, durante 20-30 min, como pela análise de conteúdo de 20 sessões transcritas. A presença sempre foi maior que 80% dos familiares esperados, com predomínio de mulheres, especialmente mães de pacientes. A estrutura oferecida pela liderança apressou a obtenção de resultados no curto prazo, entre 4 a 6 sessões. A Coesão Grupal de Yalom apareceu em situações comuns e criou um senso de união entre todos. CONCLUSÃO: A adesão de familiares à PGA facilita e abrevia a terapia em HD. Questiona-se quanto, no futuro, a família orientada assumirá na condução do tratamento dos seus pacientes.INTRODUCTION: The relative is the bridge between the patient's home environment and the therapeutic environment of the day-hospital (DH. The difficulties for the relative to play this task gave birth to the multi-family support group therapy (SGR. To describe the features, leadership and Yalom's therapeutic factors in the SGR is the aim of this paper. METHOD: The SGR is an open group that last for one hour and 15 minutes, meets once weekly

  13. CO{sub 2} Sequestration Capacity and Associated Aspects of the Most Promising Geologic Formations in the Rocky Mountain Region: Local-Scale Analyses

    Energy Technology Data Exchange (ETDEWEB)

    Laes, Denise; Eisinger, Chris; Morgan, Craig; Rauzi, Steve; Scholle, Dana; Scott, Phyllis; Lee, Si-Yong; Zaluski, Wade; Esser, Richard; Matthews, Vince; McPherson, Brian

    2013-07-30

    The purpose of this report is to provide a summary of individual local-­scale CCS site characterization studies conducted in Colorado, New Mexico and Utah. These site-­ specific characterization analyses were performed as part of the “Characterization of Most Promising Sequestration Formations in the Rocky Mountain Region” (RMCCS) project. The primary objective of these local-­scale analyses is to provide a basis for regional-­scale characterization efforts within each state. Specifically, limits on time and funding will typically inhibit CCS projects from conducting high-­ resolution characterization of a state-­sized region, but smaller (< 10,000 km{sup 2}) site analyses are usually possible, and such can provide insight regarding limiting factors for the regional-­scale geology. For the RMCCS project, the outcomes of these local-­scale studies provide a starting point for future local-­scale site characterization efforts in the Rocky Mountain region.

  14. CO{sub 2} Sequestration Capacity and Associated Aspects of the Most Promising Geologic Formations in the Rocky Mountain Region: Local-Scale Analyses

    Energy Technology Data Exchange (ETDEWEB)

    Laes, Denise; Eisinger, Chris; Morgan, Craig; Rauzi, Steve; Scholle, Dana; Scott, Phyllis; Lee, Si-Yong; Zaluski, Wade; Esser, Richard; Matthews, Vince; McPherson, Brian

    2013-07-30

    The purpose of this report is to provide a summary of individual local-­‐scale CCS site characterization studies conducted in Colorado, New Mexico and Utah. These site-­‐ specific characterization analyses were performed as part of the “Characterization of Most Promising Sequestration Formations in the Rocky Mountain Region” (RMCCS) project. The primary objective of these local-­‐scale analyses is to provide a basis for regional-­‐scale characterization efforts within each state. Specifically, limits on time and funding will typically inhibit CCS projects from conducting high-­‐ resolution characterization of a state-­‐sized region, but smaller (< 10,000 km{sup 2}) site analyses are usually possible, and such can provide insight regarding limiting factors for the regional-­‐scale geology. For the RMCCS project, the outcomes of these local-­‐scale studies provide a starting point for future local-­‐scale site characterization efforts in the Rocky Mountain region.

  15. Milk intake is not associated with ischaemic heart disease in observational or Mendelian randomization analyses in 98,529 Danish adults

    DEFF Research Database (Denmark)

    Bergholdt, Helle K M; Nordestgaard, Børge G; Varbo, Anette;

    2015-01-01

    BACKGROUND: Observationally, reports on the association between milk intake and risk of ischaemic heart disease (IHD) and myocardial infarction (MI) have produced conflicting results; and no previous large-scale study using the lactase persistent/non-persistent LCT-13910 C/T genotype as a largely...... was not associated convincingly with plasma levels of total cholesterol, low-density lipoprotein cholesterol, high-density lipoprotein cholesterol, triglycerides or glucose, nor with blood pressure. CONCLUSION: Milk intake was not associated with risk of IHD or MI, observationally or genetically....

  16. Tracing QTLs for Leaf Blast Resistance and Agronomic Performance of Finger Millet (Eleusine coracana (L.) Gaertn.) Genotypes through Association Mapping and in silico Comparative Genomics Analyses

    Science.gov (United States)

    Ramakrishnan, M.; Antony Ceasar, S.; Duraipandiyan, V.; Vinod, K. K.; Kalpana, Krishnan; Al-Dhabi, N. A.; Ignacimuthu, S.

    2016-01-01

    Finger millet is one of the small millets with high nutritive value. This crop is vulnerable to blast disease caused by Pyricularia grisea, which occurs annually during rainy and winter seasons. Leaf blast occurs at early crop stage and is highly damaging. Mapping of resistance genes and other quantitative trait loci (QTLs) for agronomic performance can be of great use for improving finger millet genotypes. Evaluation of one hundred and twenty-eight finger millet genotypes in natural field conditions revealed that leaf blast caused severe setback on agronomic performance for susceptible genotypes, most significant traits being plant height and root length. Plant height was reduced under disease severity while root length was increased. Among the genotypes, IE4795 showed superior response in terms of both disease resistance and better agronomic performance. A total of seven unambiguous QTLs were found to be associated with various agronomic traits including leaf blast resistance by association mapping analysis. The markers, UGEP101 and UGEP95, were strongly associated with blast resistance. UGEP98 was associated with tiller number and UGEP9 was associated with root length and seed yield. Cross species validation of markers revealed that 12 candidate genes were associated with 8 QTLs in the genomes of grass species such as rice, foxtail millet, maize, Brachypodium stacei, B. distachyon, Panicum hallii and switchgrass. Several candidate genes were found proximal to orthologous sequences of the identified QTLs such as 1,4-β-glucanase for leaf blast resistance, cytokinin dehydrogenase (CKX) for tiller production, calmodulin (CaM) binding protein for seed yield and pectin methylesterase inhibitor (PMEI) for root growth and development. Most of these QTLs and their putatively associated candidate genes are reported for first time in finger millet. On validation, these novel QTLs may be utilized in future for marker assisted breeding for the development of fungal

  17. Tracing QTLs for Leaf Blast Resistance and Agronomic Performance of Finger Millet (Eleusine coracana (L.) Gaertn.) Genotypes through Association Mapping and in silico Comparative Genomics Analyses.

    Science.gov (United States)

    Ramakrishnan, M; Antony Ceasar, S; Duraipandiyan, V; Vinod, K K; Kalpana, Krishnan; Al-Dhabi, N A; Ignacimuthu, S

    2016-01-01

    Finger millet is one of the small millets with high nutritive value. This crop is vulnerable to blast disease caused by Pyricularia grisea, which occurs annually during rainy and winter seasons. Leaf blast occurs at early crop stage and is highly damaging. Mapping of resistance genes and other quantitative trait loci (QTLs) for agronomic performance can be of great use for improving finger millet genotypes. Evaluation of one hundred and twenty-eight finger millet genotypes in natural field conditions revealed that leaf blast caused severe setback on agronomic performance for susceptible genotypes, most significant traits being plant height and root length. Plant height was reduced under disease severity while root length was increased. Among the genotypes, IE4795 showed superior response in terms of both disease resistance and better agronomic performance. A total of seven unambiguous QTLs were found to be associated with various agronomic traits including leaf blast resistance by association mapping analysis. The markers, UGEP101 and UGEP95, were strongly associated with blast resistance. UGEP98 was associated with tiller number and UGEP9 was associated with root length and seed yield. Cross species validation of markers revealed that 12 candidate genes were associated with 8 QTLs in the genomes of grass species such as rice, foxtail millet, maize, Brachypodium stacei, B. distachyon, Panicum hallii and switchgrass. Several candidate genes were found proximal to orthologous sequences of the identified QTLs such as 1,4-β-glucanase for leaf blast resistance, cytokinin dehydrogenase (CKX) for tiller production, calmodulin (CaM) binding protein for seed yield and pectin methylesterase inhibitor (PMEI) for root growth and development. Most of these QTLs and their putatively associated candidate genes are reported for first time in finger millet. On validation, these novel QTLs may be utilized in future for marker assisted breeding for the development of fungal

  18. Tracing QTLs for Leaf Blast Resistance and Agronomic Performance of Finger Millet (Eleusine coracana (L. Gaertn. Genotypes through Association Mapping and in silico Comparative Genomics Analyses.

    Directory of Open Access Journals (Sweden)

    M Ramakrishnan

    Full Text Available Finger millet is one of the small millets with high nutritive value. This crop is vulnerable to blast disease caused by Pyricularia grisea, which occurs annually during rainy and winter seasons. Leaf blast occurs at early crop stage and is highly damaging. Mapping of resistance genes and other quantitative trait loci (QTLs for agronomic performance can be of great use for improving finger millet genotypes. Evaluation of one hundred and twenty-eight finger millet genotypes in natural field conditions revealed that leaf blast caused severe setback on agronomic performance for susceptible genotypes, most significant traits being plant height and root length. Plant height was reduced under disease severity while root length was increased. Among the genotypes, IE4795 showed superior response in terms of both disease resistance and better agronomic performance. A total of seven unambiguous QTLs were found to be associated with various agronomic traits including leaf blast resistance by association mapping analysis. The markers, UGEP101 and UGEP95, were strongly associated with blast resistance. UGEP98 was associated with tiller number and UGEP9 was associated with root length and seed yield. Cross species validation of markers revealed that 12 candidate genes were associated with 8 QTLs in the genomes of grass species such as rice, foxtail millet, maize, Brachypodium stacei, B. distachyon, Panicum hallii and switchgrass. Several candidate genes were found proximal to orthologous sequences of the identified QTLs such as 1,4-β-glucanase for leaf blast resistance, cytokinin dehydrogenase (CKX for tiller production, calmodulin (CaM binding protein for seed yield and pectin methylesterase inhibitor (PMEI for root growth and development. Most of these QTLs and their putatively associated candidate genes are reported for first time in finger millet. On validation, these novel QTLs may be utilized in future for marker assisted breeding for the development of

  19. Genomic analyses of cherry rusty mottle group and cherry twisted leaf-associated viruses reveal a possible new genus within the family betaflexiviridae.

    Science.gov (United States)

    Villamor, D E V; Susaimuthu, J; Eastwell, K C

    2015-03-01

    It is demonstrated that closely related viruses within the family Betaflexiviridae are associated with a number of diseases that affect sweet cherry (Prunus avium) and other Prunus spp. Cherry rusty mottle-associated virus (CRMaV) is correlated with the appearance of cherry rusty mottle disease (CRMD), and Cherry twisted leaf-associated virus (CTLaV) is linked to cherry twisted leaf disease (CTLD) and apricot ringpox disease (ARPD). Comprehensive analysis of previously reported full genomic sequences plus those determined in this study representing isolates of CTLaV, CRMaV, Cherry green ring mottle virus, and Cherry necrotic rusty mottle virus revealed segregation of sequences into four clades corresponding to distinct virus species. High-throughput sequencing of RNA from representative source trees for CRMD, CTLD, and ARPD did not reveal additional unique virus sequences that might be associated with these diseases, thereby further substantiating the association of CRMaV and CTLaV with CRMD and CTLD or ARPD, respectively. Based on comparison of the nucleotide and amino acid sequence identity values, phylogenetic relationships with other triple-gene block-coding viruses within the family Betaflexiviridae, genome organization, and natural host range, a new genus (Robigovirus) is suggested. PMID:25496302

  20. Clear detection of ADIPOQ locus as the major gene for plasma adiponectin: Results of genome-wide association analyses including 4659 European individuals

    NARCIS (Netherlands)

    I.M. Heid (Iris); P. Henneman (Peter); A.A. Hicks (Andrew); S. Coassin (Stefan); T.W. Winkler (Thomas); Y.S. Aulchenko (Yurii); C. Fuchsberger (Christian); K. Song (Kijoung); M.F. Hivert; D. Waterworth (Dawn); N. Timpson (Nicholas); J.B. Richards (Brent); J.R.B. Perry (John); T. Tanaka (Toshiko); N. Amin (Najaf); B. Kollerits (Barbara); I. Pichler (Irene); B.A. Oostra (Ben); B. Thorand (Barbara); R.R. Frants (Rune); T. Illig (Thomas); J. Dupuis (Josée); B. Glaser (Beate); T.D. Spector (Timothy); J.M. Guralnik (Jack); J.M. Egan (Josephine); J.C. Florez (Jose); D.M. Evans (David); N. Soranzo (Nicole); S. Bandinelli (Stefania); O.D. Carlson (Olga); T.M. Frayling (Timothy); K.A. Burling (Keith); G.D. Smith; V. Mooser (Vincent); L. Ferrucci (Luigi); J.B. Meigs (James); P. Vollenweider (Peter); K.W.v. Dijk; P.P. Pramstaller (Peter Paul); F. Kronenberg (Florian); P. Tikka-Kleemola (Päivi)

    2010-01-01

    textabstractObjective: Plasma adiponectin is strongly associated with various components of metabolic syndrome, type 2 diabetes and cardiovascular outcomes. Concentrations are highly heritable and differ between men and women. We therefore aimed to investigate the genetics of plasma adiponectin in m

  1. In Situ Analyses of Methane Oxidation Associated with the Roots and Rhizomes of a Bur Reed, Sparganium eurycarpum, in a Maine Wetland

    OpenAIRE

    King, G. M.

    1996-01-01

    Methane oxidation associated with the belowground tissues of a common aquatic macrophyte, the burweed Sparganium eurycarpum, was assayed in situ by a chamber technique with acetylene or methyl fluoride as a methanotrophic inhibitor at a headspace concentration of 3 to 4%. Acetylene and methyl fluoride inhibited both methane oxidation and peat methanogenesis. However, inhibition of methanogenesis resulted in no obvious short-term effect on methane fluxes. Since neither inhibitor adversely affe...

  2. Association analyses of oxidative stress, aerobic capacity, daily physical activity, and body composition parameters in patients with mild to moderate COPD

    OpenAIRE

    Genç, Abdurrahman; ÜÇOK, Kağan; ŞENER, Ümit; KOYUNCU, Tülay; AKAR, Olcay; ÇELİK, Sefa; Ünlü, Mehmet

    2014-01-01

    To investigate total oxidant and antioxidant status, maximal aerobic capacity, daily physical activity, pulmonary functions, and body composition changes, as well as the associations among these parameters, in patients with mild to moderate chronic obstructive pulmonary disease (COPD) versus healthy controls. Materials and methods: The study included 30 male patients newly diagnosed with COPD and 30 body mass index-matched, nonsmoker male controls. Maximal aerobic capacity, daily physical ac...

  3. Clonal analyses reveal associations of JAK2V617F homozygosity with hematologic features, age and gender in polycythemia vera and essential thrombocythemia

    OpenAIRE

    Godfrey, Anna L.; Chen, Edwin; Pagano, Francesca; Silber, Yvonne; Campbell, Peter J.; Green, Anthony R.

    2013-01-01

    Subclones homozygous for JAK2V617F are more common and larger in patients with polycythemia vera compared to essential thrombocythemia, but their role in determining phenotype remains unclear. We genotyped 4564 erythroid colonies from 59 patients with polycythemia vera or essential thrombocythemia to investigate whether the proportion of JAK2V617F -homozygous precursors, compared to heterozygous precursors, is associated with clinical or demographic features. In polycythemia vera, a higher pr...

  4. Analyses of resected human brain metastases of breast cancer reveal the association between up-regulation of hexokinase 2 and poor prognosis.

    Science.gov (United States)

    Palmieri, Diane; Fitzgerald, Daniel; Shreeve, S Martin; Hua, Emily; Bronder, Julie L; Weil, Robert J; Davis, Sean; Stark, Andreas M; Merino, Maria J; Kurek, Raffael; Mehdorn, H Maximilian; Davis, Gary; Steinberg, Seth M; Meltzer, Paul S; Aldape, Kenneth; Steeg, Patricia S

    2009-09-01

    Brain metastases of breast cancer seem to be increasingin incidence as systemic therapy improves. Metastatic disease in the brain is associated with high morbidity and mortality. We present the first gene expression analysis of laser-captured epithelial cells from resected human brain metastases of breast cancer compared with unlinked primary breast tumors. The tumors were matched for histology, tumor-node-metastasis stage, and hormone receptor status. Most differentially expressed genes were down-regulated in the brain metastases, which included, surprisingly, many genes associated with metastasis. Quantitative real-time PCR analysis confirmed statistically significant differences or strong trends in the expression of six genes: BMP1, PEDF, LAMgamma3, SIAH, STHMN3, and TSPD2. Hexokinase 2 (HK2) was also of interest because of its increased expression in brain metastases. HK2 is important in glucose metabolism and apoptosis. In agreement with our microarray results, HK2 levels (both mRNA and protein) were elevated in a brain metastatic derivative (231-BR) of the human breast carcinoma cell line MDA-MB-231 relative to the parental cell line (231-P) in vitro. Knockdown of HK2 expression in 231-BR cells using short hairpin RNA reduced cell proliferation when cultures were maintained in glucose-limiting conditions. Finally, HK2 expression was analyzed in a cohort of 123 resected brain metastases of breast cancer. High HK2 expression was significantly associated with poor patient survival after craniotomy (P = 0.028). The data suggest that HK2 overexpression is associated with metastasis to the brain in breast cancer and it may be a therapeutic target. PMID:19723875

  5. Efficacy of levomilnacipran extended-release in improving functional impairment associated with major depressive disorder: pooled analyses of five double-blind, placebo-controlled trials

    OpenAIRE

    Sambunaris, Angelo; Gommoll, Carl; Chen, ChangZheng; Greenberg, William M

    2014-01-01

    Major depressive disorder (MDD) is characterized by increased rates of impaired function and disability. During antidepressant treatment, functional improvement often lags behind symptomatic resolution, and residual impairment is associated with an increased risk for relapse. When evaluating MDD treatments, it is important to assess not only depressive symptoms but also functional outcomes. In this post-hoc analysis, data from five studies were pooled to examine the effect of levomilnacipran ...

  6. Academic and Social Functioning Associated with Attention-Deficit/Hyperactivity Disorder: Latent Class Analyses of Trajectories from Kindergarten to Fifth Grade.

    Science.gov (United States)

    DuPaul, George J; Morgan, Paul L; Farkas, George; Hillemeier, Marianne M; Maczuga, Steve

    2016-10-01

    Children with attention-deficit/hyperactivity disorder (ADHD) are known to exhibit significantly lower academic and social functioning than other children. Yet the field currently lacks knowledge about specific impairment trajectories experienced by children with ADHD, which may constrain early screening and intervention effectiveness. Data were analyzed from a nationally representative U.S. cohort in the Early Childhood Longitudinal Study, Kindergarten Class of 1998-1999 (ECLS-K) for 590 children (72.7 % male) whose parents reported a formal diagnosis of ADHD. Children's math, reading, and interpersonal skills were assessed at 5 time points between kindergarten and fifth grade. Growth mixture model analyses indicated 4 latent trajectory classes for reading, 8 classes for math, and 4 classes for interpersonal skills. Membership in reading and math trajectory classes was strongly related; overlaps with interpersonal skills classes were weaker. Trajectory class membership was correlated with demographic characteristics and behavioral functioning. Children with ADHD display substantial heterogeneity in their reading, math, and interpersonal growth trajectories, with some groups of children especially likely to display relatively severe levels of academic and social impairment over time. Early screening and intervention to address impairment, particularly reading difficulties, among kindergarten students with ADHD is warranted. PMID:26750108

  7. Academic and Social Functioning Associated with Attention-Deficit/Hyperactivity Disorder: Latent Class Analyses of Trajectories from Kindergarten to Fifth Grade.

    Science.gov (United States)

    DuPaul, George J; Morgan, Paul L; Farkas, George; Hillemeier, Marianne M; Maczuga, Steve

    2016-10-01

    Children with attention-deficit/hyperactivity disorder (ADHD) are known to exhibit significantly lower academic and social functioning than other children. Yet the field currently lacks knowledge about specific impairment trajectories experienced by children with ADHD, which may constrain early screening and intervention effectiveness. Data were analyzed from a nationally representative U.S. cohort in the Early Childhood Longitudinal Study, Kindergarten Class of 1998-1999 (ECLS-K) for 590 children (72.7 % male) whose parents reported a formal diagnosis of ADHD. Children's math, reading, and interpersonal skills were assessed at 5 time points between kindergarten and fifth grade. Growth mixture model analyses indicated 4 latent trajectory classes for reading, 8 classes for math, and 4 classes for interpersonal skills. Membership in reading and math trajectory classes was strongly related; overlaps with interpersonal skills classes were weaker. Trajectory class membership was correlated with demographic characteristics and behavioral functioning. Children with ADHD display substantial heterogeneity in their reading, math, and interpersonal growth trajectories, with some groups of children especially likely to display relatively severe levels of academic and social impairment over time. Early screening and intervention to address impairment, particularly reading difficulties, among kindergarten students with ADHD is warranted.

  8. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. 4. Nested analyses with cladogram uncertainty and recombination

    Energy Technology Data Exchange (ETDEWEB)

    Templeton, A.R. (Washington Univ., St. Louis, MO (United States)); Sing, C.F. (Univ. of Michigan, Ann Arbor (United States))

    1993-06-01

    The authors previously developed an analytical strategy based on cladistic theory to identify subsets of haplotypes that are associated with significant phenotypic deviations. Their initial approach was limited to segments of DNA in which little recombination occurs. In such cases, a cladogram can be constructed from the restriction site data to estimate the evolutionary steps that interrelate the observed haplotypes to one another. The cladogram is then used to define a nested statistical design for identifying mutational steps associated with significant phenotypic deviations. The central assumption behind this strategy is that a mutation responsible for a particular phenotypic effect is embedded within the evolutionary history that is represented by the cladogram. The power of this approach depends on the accuracy of the cladogram in portraying the evolutionary history of the DNA region. This accuracy can be diminished both by recombination and by uncertainty in the estimated cladogram topology. In a previous paper, the authors presented an algorithm for estimating the set of likely cladograms and recombination events. In this paper they present an algorithm for defining a nested statistical design under cladogram uncertainty and recombination. Given the nested design, phenotypic associations can be examined using either a nested analysis of variance (for haploids or homozygous strains) or permutation testing (for outcrossed, diploid gene regions). In this paper they extend this analytical strategy to include categorical phenotypes in addition to quantitative phenotypes. Some worked examples are presented using Drosophila data sets. These examples illustrate that having some recombination may actually enhance the biological inferences that may be derived from a cladistic analysis. In particular, recombination can be used to assign a physical localization to a given subregion for mutations responsible for significant phenotypic effects. 14 refs., 10 figs., 7 figs.

  9. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. IV. Nested analyses with cladogram uncertainty and recombination.

    Science.gov (United States)

    Templeton, A R; Sing, C F

    1993-06-01

    We previously developed an analytical strategy based on cladistic theory to identify subsets of haplotypes that are associated with significant phenotypic deviations. Our initial approach was limited to segments of DNA in which little recombination occurs. In such cases, a cladogram can be constructed from the restriction site data to estimate the evolutionary steps that interrelate the observed haplotypes to one another. The cladogram is then used to define a nested statistical design for identifying mutational steps associated with significant phenotypic deviations. The central assumption behind this strategy is that a mutation responsible for a particular phenotypic effect is embedded within the evolutionary history that is represented by the cladogram. The power of this approach depends on the accuracy of the cladogram in portraying the evolutionary history of the DNA region. This accuracy can be diminished both by recombination and by uncertainty in the estimated cladogram topology. In a previous paper, we presented an algorithm for estimating the set of likely claodgrams and recombination events. In this paper we present an algorithm for defining a nested statistical design under cladogram uncertainty and recombination. Given the nested design, phenotypic associations can be examined using either a nested analysis of variance (for haploids or homozygous strains) or permutation testing (for outcrossed, diploid gene regions). In this paper we also extend this analytical strategy to include categorical phenotypes in addition to quantitative phenotypes. Some worked examples are presented using Drosophila data sets. These examples illustrate that having some recombination may actually enhance the biological inferences that may derived from a cladistic analysis. In particular, recombination can be used to assign a physical localization to a given subregion for mutations responsible for significant phenotypic effects.

  10. Association analyses of large-scale glycan microarray data reveal novel host-specific substructures in influenza A virus binding glycans

    Science.gov (United States)

    Zhao, Nan; Martin, Brigitte E.; Yang, Chun-Kai; Luo, Feng; Wan, Xiu-Feng

    2015-10-01

    Influenza A viruses can infect a wide variety of animal species and, occasionally, humans. Infection occurs through the binding formed by viral surface glycoprotein hemagglutinin and certain types of glycan receptors on host cell membranes. Studies have shown that the α2,3-linked sialic acid motif (SA2,3Gal) in avian, equine, and canine species; the α2,6-linked sialic acid motif (SA2,6Gal) in humans; and SA2,3Gal and SA2,6Gal in swine are responsible for the corresponding host tropisms. However, more detailed and refined substructures that determine host tropisms are still not clear. Thus, in this study, we applied association mining on a set of glycan microarray data for 211 influenza viruses from five host groups: humans, swine, canine, migratory waterfowl, and terrestrial birds. The results suggest that besides Neu5Acα2-6Galβ, human-origin viruses could bind glycans with Neu5Acα2-8Neu5Acα2-8Neu5Ac and Neu5Gcα2-6Galβ1-4GlcNAc substructures; Galβ and GlcNAcβ terminal substructures, without sialic acid branches, were associated with the binding of human-, swine-, and avian-origin viruses; sulfated Neu5Acα2-3 substructures were associated with the binding of human- and swine-origin viruses. Finally, through three-dimensional structure characterization, we revealed that the role of glycan chain shapes is more important than that of torsion angles or of overall structural similarities in virus host tropisms.

  11. Atomistic analyses of competition between site-selective segregation and association of point defects at grain boundary in Y2O3-doped ZrO2

    International Nuclear Information System (INIS)

    The site-selective occupation of point defects, Y3+ ions (Y′Zr) and O2- vacancies (VÖ), and their associations at a symmetric tilt grain boundary (GB) are studied to understand their competitive contribution to energetically favorable atomic arrangements by using atomistic simulations. It is found that at the GB there are the favorable sites for segregation of an isolated Y′Zr and VÖ. This indicates that the driving force for the site-selective segregation is present. Moreover, our results of Y′Zr-VÖ association at the GB show that the lattice energies are very dispersed despite that a second-nearest neighbor (SNN) vacancy to Y′Zr is favored for bulk Y2O3-doped ZrO2. The result suggests that the site-selective segregation has significant effects on the favorable point defect arrangement at the GB core, competing with the point defect associations. For more realistic cases, Monte Carlo simulations are performed to reveal favorable atomic arrangements for a high dopant concentration, where point defects are crowded at the GB. The results show that the region of GB segregation can be classified with respect to O2- coordination to cation species; at the GB core the favorable configuration is not necessarily a SNN O2- vacancy relative to Y3+. On the other hand, eight-fold O2- coordination is sustained for Y3+ ions more than ∼3 Å distant from the GB plane. The difference in O2- coordination may play an important role in O2- ionic conductivity at GBs via the energetics for O2- migration. (author)

  12. Chemical dissolution-front instability associated with water-rock reactions in groundwater hydrology: Analyses of porosity-permeability relationship effects

    Science.gov (United States)

    Zhao, Chongbin; Hobbs, B. E.; Ord, A.

    2016-09-01

    Because dissolution of rocks may create and enhance groundwater flow channels, the chemical dissolution-front instability (CDFI) can control the quality of groundwater. This paper presents the theoretical analyses of porosity-permeability relationship effects on the CDFI in water-saturated porous rocks. Since the CDFI in a water-rock reaction system can be assessed by comparing the comprehensive dimensionless dynamic characteristic (CDDC) number with the corresponding critical CDDC number of the geochemical dissolution system, it is necessary to investigate theoretically how different porosity-permeability relationships can affect the CDDC number and critical CDDC number of a water-rock reaction system. With the commonly-used Kozeny-Carman (KC) formula taken as a reference porosity-permeability formula, the permeability variation indicator (PVI), which is defined as the ratio of the permeability obtained from any porosity-permeability formula to that obtained from the KC formula, is proposed to reflect the effect of the porosity-permeability formula on the CDFI in a water-rock reaction system. The theoretical results demonstrated that: (1) since the porosity-permeability formula with a higher PVI can result in a stronger Darcy flow velocity, it may have a significant influence on the CDFI in the water-rock reaction system. (2) With an increase in the PVI of a porosity-permeability formula, there is a decrease in the critical CDDC number of the water-rock reaction system. This means that the porous rock with a higher PVI can enable the CDFI to take place much easier in the water-rock reaction system. (3) The use of the porosity-permeability formula with a higher PVI can also cause an increase in both the dimensionless growth rate of a perturbation and the propagation speed of the chemical dissolution front in the water-rock reaction system.

  13. Genome-wide association meta-analyses identified 1q43 and 2q32.2 for hip Ward's triangle areal bone mineral density.

    Science.gov (United States)

    Pei, Yu-Fang; Hu, Wen-Zhu; Hai, Rong; Wang, Xiu-Yan; Ran, Shu; Lin, Yong; Shen, Hui; Tian, Qing; Lei, Shu-Feng; Zhang, Yong-Hong; Papasian, Christopher J; Deng, Hong-Wen; Zhang, Lei

    2016-10-01

    Aiming to identify genomic variants associated with osteoporosis, we performed a genome-wide association meta-analysis of bone mineral density (BMD) at Ward's triangle of the hip in 7175 subjects from 6 samples. We performed in silico replications with femoral neck, trochanter, and inter-trochanter BMDs in 6912 subjects from the Framingham heart study (FHS), and with forearm, femoral neck and lumbar spine BMDs in 32965 subjects from the GEFOS summary results. Combining the evidence from all samples, we identified 2 novel loci for areal BMD: 1q43 (rs1414660, discovery p=1.20×10(-8), FHS p=0.05 for trochanter BMD; rs9287237, discovery p=3.55×10(-7), FHS p=9.20×10(-3) for trochanter BMD, GEFOS p=0.02 for forearm BMD, nearest gene FMN2) and 2q32.2 (rs56346965, discovery p=7.48×10(-7), FHS p=0.10 for inter-trochanter BMD, GEFOS p=0.02 for spine BMD, nearest gene NAB1). The two lead SNPs rs1414660 and rs56346965 are eQTL sites for the genes GREM2 and NAB1 respectively. Functional annotation of GREM2 and NAB1 illustrated their involvement in BMP signaling pathway and in bone development. We also replicated three previously reported loci: 5q14.3 (rs10037512, discovery p=3.09×10(-6), FHS p=8.50×10(-3), GEFOS p=1.23×10(-24) for femoral neck BMD, nearest gene MEF2C), 6q25.1 (rs3020340, discovery p=1.64×10(-6), GEFOS p=1.69×10(-3) for SPN-BMD, nearest gene ESR1) and 7q21.3 (rs13310130, discovery p=8.79×10(-7), GEFOS p=2.61×10(-7) for spine BMD, nearest gene SHFM1). Our findings provide additional insights that further enhance our understanding of bone development, osteoporosis, and fracture pathogenesis. PMID:27397699

  14. Efficacy of levomilnacipran extended-release in improving functional impairment associated with major depressive disorder: pooled analyses of five double-blind, placebo-controlled trials.

    Science.gov (United States)

    Sambunaris, Angelo; Gommoll, Carl; Chen, Changzheng; Greenberg, William M

    2014-07-01

    Major depressive disorder (MDD) is characterized by increased rates of impaired function and disability. During antidepressant treatment, functional improvement often lags behind symptomatic resolution, and residual impairment is associated with an increased risk for relapse. When evaluating MDD treatments, it is important to assess not only depressive symptoms but also functional outcomes. In this post-hoc analysis, data from five studies were pooled to examine the effect of levomilnacipran extended-release (ER) versus placebo on functional impairment as measured using the Sheehan Disability Scale. The mean change in the Sheehan Disability Scale total score was significantly greater for levomilnacipran ER versus placebo in the overall pooled population, for both sexes, and across all ages. Statistically significantly higher rates of functional response, functional remission, combined (functional and symptomatic) response, and combined remission were achieved with levomilnacipran ER compared with placebo in the pooled population, as well as in the male, female, younger, and middle-aged population subgroups. The levomilnacipran ER group also showed significantly improved functional outcomes versus placebo regardless of baseline depression severity. Similarly, functional impairment was significantly improved and higher functional and combined response and remission rates were achieved with levomilnacipran ER compared with placebo regardless of the baseline level of functional impairment. PMID:24667487

  15. Linkage and association analyses identify a candidate region for apoB level on chromosome 4q32.3 in FCHL families.

    Science.gov (United States)

    Wijsman, Ellen M; Rothstein, Joseph H; Igo, Robert P; Brunzell, John D; Motulsky, Arno G; Jarvik, Gail P

    2010-06-01

    Familial combined hyperlipidemia (FCHL) is a complex trait leading to cardiovascular disease (CVD) risk. Elevated levels and size of apolipoprotein B (apoB) and low-density lipoprotein (LDL) are associated with FCHL, which is genetically heterogeneous and is likely caused by rare variants. We carried out a linkage-based genome scan of four large FCHL pedigrees for apoB level that is independent of LDL: apoB level that is adjusted for LDL level and size. Follow-up included SNP genotyping in the region with the strongest evidence of linkage. Several regions with the evidence of linkage in individual pedigrees support the rare variant model. Evidence of linkage was strongest on chromosome 4q, with multipoint analysis in one pedigree giving LOD = 3.1 with a parametric model, and a log Bayes Factor = 1.5 from a Bayesian oligogenic approach. Of the 293 SNPs spanning the implicated region on 4q, rs6829588 completely explained the evidence of linkage. This SNP accounted for 39% of the apoB phenotypic variance, with heterozygotes for this SNP having a trait value that was approximately 30% higher than that of the high-frequency homozygote, thus identifying and considerably refining a strong candidate region. These results illustrate the advantage of using large pedigrees in the search for rare variants: reduced genetic heterogeneity within single pedigrees coupled with the large number of individuals segregating otherwise-rare single variants leads to high power to implicate such variants.

  16. Defining a minimal clinically important difference for endometriosis-associated pelvic pain measured on a visual analog scale: analyses of two placebo-controlled, randomized trials

    Directory of Open Access Journals (Sweden)

    Schmitz Heinz

    2010-11-01

    Full Text Available Abstract Background When comparing active treatments, a non-inferiority (or one-sided equivalence study design is often used. This design requires the definition of a non-inferiority margin, the threshold value of clinical relevance. In recent studies, a non-inferiority margin of 15 mm has been used for the change in endometriosis-associated pelvic pain (EAPP on a visual analog scale (VAS. However, this value was derived from other chronic painful conditions and its validation in EAPP was lacking. Methods Data were analyzed from two placebo-controlled studies of active treatments in endometriosis, including 281 patients with laparoscopically-confirmed endometriosis and moderate-to-severe EAPP. Patients recorded EAPP on a VAS at baseline and the end of treatment. Patients also assessed their satisfaction with treatment on a modified Clinical Global Impression scale. Changes in VAS score were compared with patients' self-assessments to derive an empirically validated non-inferiority margin. This anchor-based value was compared to a non-inferiority margin derived using the conventional half standard deviation rule for minimal clinically important difference (MCID in patient-reported outcomes. Results Anchor-based and distribution-based MCIDs were-7.8 mm and-8.6 mm, respectively. Conclusions An empirically validated non-inferiority margin of 10 mm for EAPP measured on a VAS is appropriate to compare treatments in endometriosis.

  17. Association and linkage analyses of the alpha and beta genes of the sodium-potassium ATPase with age-related changes in blood pressures

    Energy Technology Data Exchange (ETDEWEB)

    Perusse, L.; Deriaz, O.; Dlonne, F.T. [Laval Univ., Quebec (Canada)] [and others

    1994-09-01

    Sodium-potassium-adenosine triphosphatase (Na-K-ATPase), a membrane-bound enzyme responsible for the maintenance of Na{sup +} and K{sup +} gradients in the cell, has been hypothesized to play a role in the etiology of hypertension. To test whether genetic variation in the alpha ({alpha}) and beta ({beta}) genes of the Na-K-ATPase were related to changes in blood pressure with age, systolic (SBP) and diastolic (DBP) blood pressures were measured in 1980 (T1) and 1991 (T2) in 293 members of 74 randomly ascertained families. Changes ({Delta}) between these two time periods (T2-T1) were also computed. Four RFLPs in the {alpha}1, {alpha}2 (exon 1 and exon 21-22) and {beta} genes were identified. Analysis of variance performed in the unrelated parents revealed no significant differences between genotypes at the {alpha}1 and {alpha}2 loci for both {Delta}SBP and {Delta}DBP. However, significant differences between genotypes at the {beta} locus were observed for {Delta}SBP adjusted for age at T1. Linkage analysis of {Delta}SBP and {Delta}DBP with these RFLPs was performed using the sib-pair method. Results revealed a strong linkage (p=.0005) of {Delta}SBP with the RFLP and the {beta} locus, but not with the other RFLPs. No evidence of association or linkage was observed for any of the cross-sectional (T1 or T2) blood pressure values. These results suggest that genetic variation at the {beta} locus of the Na-K-ATPase identified by a PvuII RFLP is related to changes of SBP with age and that this gene could play a role in the development of hypertension.

  18. Polymorphism and haplotype analyses of swine leukocyte antigen DQA exons 2, 3, 4, and their associations with piglet diarrhea in Chinese native pig.

    Science.gov (United States)

    Huang, X Y; Yang, Q L; Yuan, J H; Gun, S B

    2015-09-08

    In this study, 290 Chinese native Yantai black pig piglets were investigated to identify gene polymorphisms, for haplotype reconstruction, and to determine the association between piglet diarrhea and swine leukocyte antigen (SLA) class II DQA exons 2, 3, and 4 by polymerase chain reaction-single stranded conformational polymorphism and cloning sequencing. The results showed that the 5, 8, and 7 genotypes were identified from SLA-DQA exon 2, 3, and 4, respectively, based on the single-stranded conformational polymorphism banding patterns and found a novel allele D in exon 2 and 2 novel mutational sites of allele C (c.4828T>C) and allele F (c.4617T>C) in exon 3. Polymorphism information content testing showed that exon 2 was moderately polymorphic and that exons-3 and -4 loci were highly polymorphic. The piglet diarrhea scores for genotypes AB (1.40 ± 0.14) and AC (1.54 ± 0.17) in exon 2, AA (1.22 ± 0.32), BC (1.72 ± 0.13), DD (1.67 ± 0.35), and CF (1.22 ± 0.45) in exon 3, and AD (2.35 ± 0.25) in exon 4 were significantly higher than those for the other genotypes (P ≤ 0.05) in DQA exons. There were 14 reconstructed haplotypes in the 3 exons from 290 individuals and Hap12 may be the diarrhea-resistant gene. Haplotype distribution was extremely uneven, and the SLA-DQA gene showed genetic linkage. In this study, we identified molecular genetic markers and provided a theoretical foundation for future pig anti-disease resistance breeding.

  19. Characteristic DNA methylation profiles in peripheral blood monocytes are associated with inflammatory phenotypes of asthma

    OpenAIRE

    Gunawardhana, Lakshitha P; Gibson, Peter G; Simpson, Jodie L.; Benton, Miles C.; Rodney A. Lea; Baines, Katherine J

    2014-01-01

    Epigenetic changes including DNA methylation caused by environmental exposures may contribute to the heterogeneous inflammatory response in asthma. Here we investigate alterations in DNA methylation of purified blood monocytes that are associated with inflammatory phenotypes of asthma. Peripheral blood was collected from adults with eosinophilic asthma (EA; n = 21), paucigranulocytic asthma (PGA; n = 22), neutrophilic asthma (NA; n = 9), and healthy controls (n = 10). Blood monocytes were iso...

  20. Genome wide association and linkage analyses identified three loci -- 4q25, 17q23.2 and 10q11.21 -- associated with variation in leukocyte telomere length: The Long Life Family Study

    Directory of Open Access Journals (Sweden)

    Joseph H Lee

    2014-01-01

    Full Text Available Leukocyte telomere length is believed to measure cellular aging in humans, and short leukocyte telomere length is associated with increased risks of late onset diseases, including cardiovascular disease, dementia, etc. Many studies have shown that leukocyte telomere length is a heritable trait, and several candidate genes have been identified, including TERT, TERC, OBFC1, and CTC1. Unlike most studies that have focused on genetic causes of chronic diseases such as heart disease and diabetes in relation to leukocyte telomere length, the present study examined the genome to identify variants that may contribute to variation in leukocyte telomere length among families with exceptional longevity. From the genome wide association analysis in 4,289 LLFS participants, we identified a novel intergenic SNP rs7680468 located near PAPSS1 and DKK2 on 4q25 (p=4.7E-8. From our linkage analysis, we identified two additional loci with HLOD scores exceeding three, including 4.77 for 17q23.2 and 4.36 for 10q11.21. These two loci harbor a number of novel candidate genes with SNPs, and our gene-wise association analysis identified multiple genes, including DCAF7, POLG2, CEP95, and SMURF2 at 17q23.2; and RASGEF1A, HNRNPF, ANF487, CSTF2T, and PRKG1 at 10q11.21. Among these genes, multiple SNPs were associated with leukocyte telomere length, but the strongest association was observed with one contiguous haplotype in CEP95 and SMURF2. We also show that three previously reported genes – TERC, MYNN, and OBFC1 – were significantly associated with leukocyte telomere length at pempirical smaller than 0.05.

  1. Association of airborne moisture-indicating microorganisms withbuilding-related symptoms and water damage in 100 U.S. office buildings:Analyses of the U.S. EPA BASE data

    Energy Technology Data Exchange (ETDEWEB)

    Mendell, Mark J.; Lei, Quanhong; Cozen, Myrna O.; Shendell, DerekG.; Macher, Janet M.; Tsai, Feng C.

    2003-10-01

    Metrics of culturable airborne microorganisms for either total organisms or suspected harmful subgroups have generally not been associated with symptoms among building occupants. However, the visible presence of moisture damage or mold in residences and other buildings has consistently been associated with respiratory symptoms and other health effects. This relationship is presumably caused by adverse but uncharacterized exposures to moisture-related microbiological growth. In order to assess this hypothesis, we studied relationships in U.S. office buildings between the prevalence of respiratory and irritant symptoms, the concentrations of airborne microorganisms that require moist surfaces on which to grow, and the presence of visible water damage. For these analyses we used data on buildings, indoor environments, and occupants collected from a representative sample of 100 U.S. office buildings in the U.S. Environmental Protection Agency's Building Assessment Survey and Evaluation (EPA BASE) study. We created 19 alternate metrics, using scales ranging from 3-10 units, that summarized the concentrations of airborne moisture-indicating microorganisms (AMIMOs) as indicators of moisture in buildings. Two were constructed to resemble a metric previously reported to be associated with lung function changes in building occupants; the others were based on another metric from the same group of Finnish researchers, concentration cutpoints from other studies, and professional judgment. We assessed three types of associations: between AMIMO metrics and symptoms in office workers, between evidence of water damage and symptoms, and between water damage and AMIMO metrics. We estimated (as odds ratios (ORs) with 95% confidence intervals) the unadjusted and adjusted associations between the 19 metrics and two types of weekly, work-related symptoms--lower respiratory and mucous membrane--using logistic regression models. Analyses used the original AMIMO metrics and were

  2. Genome wide association and linkage analyses identified three loci-4q25, 17q23.2, and 10q11.21-associated with variation in leukocyte telomere length: the Long Life Family Study

    DEFF Research Database (Denmark)

    Lee, J. H.; Cheng, R.; Honig, L. S.;

    2014-01-01

    Leukocyte telomere length is believed to measure cellular aging in humans, and short leukocyte telomere length is associated with increased risks of late onset diseases, including cardiovascular disease, dementia, etc. Many studies have shown that leukocyte telomere length is a heritable trait......, and several candidate genes have been identified, including TERT, TERC, OBFC1, and CTC1. Unlike most studies that have focused on genetic causes of chronic diseases such as heart disease and diabetes in relation to leukocyte telomere length, the present study examined the genome to identify variants that may...... contribute to variation in leukocyte telomere length among families with exceptional longevity. From the genome wide association analysis in 4,289 LLFS participants, we identified a novel intergenic SNP rs7680468 located near PAPSS1 and DKK2 on 4q25 (p = 4.7E-8). From our linkage analysis, we identified two...

  3. Associations of indoor carbon dioxide concentrations, VOCS, environmental susceptibilities with mucous membrane and lower respiratory sick building syndrome symptoms in the BASE study: Analyses of the 100 building dataset

    Energy Technology Data Exchange (ETDEWEB)

    Apte, M.G.; Erdmann, C.A.

    2002-10-01

    Using the 100 office-building Building Assessment Survey and Evaluation (BASE) Study dataset, we performed multivariate logistic regression analyses to quantify the associations between indoor minus outdoor CO{sub 2} (dCO{sub 2}) concentrations and mucous membrane (MM) and lower respiratory system (Lresp) Sick Building Syndrome (SBS) symptoms, adjusting for age, sex, smoking status, presence of carpet in workspace, thermal exposure, relative humidity, and a marker for entrained automobile exhaust. Using principal components analysis we identified a number of possible sources of 73 measured volatile organic compounds in the office buildings, and assessed the impact of these VOCs on the probability of presenting the SBS symptoms. Additionally we included analysis adjusting for the risks for predisposition of having SBS symptoms associated with the allergic, asthmatic, and environmentally sensitive subpopulations within the office buildings. Adjusted odds ratios (ORs) for statistically significant, dose-dependant associations (p<0.05) for dry eyes, sore throat, nose/sinus congestion, and wheeze symptoms with 100-ppm increases in dCO{sub 2} ranged from 1.1 to 1.2. These results suggest that increases in the ventilation rates per person among typical office buildings will, on average significantly reduce the prevalence of several SBS symptoms, up to 80%, even when these buildings meet the existing ASHRAE ventilation standards for office buildings. VOC sources were observed to play an role in direct association with mucous membrane and lower respiratory irritation, and possibly to be indirectly involved in indoor chemical reactions with ozone that produce irritating compounds associated with SBS symptoms. O-xylene, possibly emitted from furniture coatings was associated with shortness of breath (OR at the maximum concentration = 8, p < 0.05). The environmental sensitivities of a large subset of the office building population add to the overall risk of SBS symptoms (ORs

  4. 125I-TOC和125I-F-PGA放射化学纯度的测定%Determination of Radiochemical Purity of 125 I-TOC and 125 I-F-PGA

    Institute of Scientific and Technical Information of China (English)

    杨科亚; 范我; 张友九; 许玉杰; 朱然; 胡明江

    2006-01-01

    为比较3种测定125I标记的奥曲肽(TOC)和叶酸-青霉素酰化酶复合物(F-PGA)的放射化学纯度(RCP)的方法是否具有一致性,采用Iodogen法对TOC和F-PGA进行放射性碘标记,并用高效液相色谱法(HPLC)、三氯醋酸(TCA)沉淀法和纸层析法测定标记物的放射化学纯度(RCP),其中TCA沉淀法设4种蛋白浓度以观察其对RCP测定的影响.结果表明,HPLC和纸层析法均能有效分离标记物和游离碘,且HPLC测定这种标记物的RCP最为精确可信.在TCA沉淀法中,用0.2%的小牛血清白蛋白(BSA)测得的RCP最低,而用其它3个BSA浓度测得的RCP则无明显差异(P>0.05);当RCP<10%时,TCA沉淀法与纸层析法测得的RCP间无明显差异(P>0.05),而要高于HPLC(P<0.01);当RCP>10%时,对125I-TOC而言,TCA沉淀法要略低于HPLC和纸层析(P<0.05),但后2种方法无明显差异(P>0.05),且对125I-F-PGA而言,3种方法无明显差异(P>0.05).3种方法两两之间显著相关(r=0.996~0.999,P<0.001).

  5. Sproglig Metode og Analyse

    DEFF Research Database (Denmark)

    le Fevre Jakobsen, Bjarne

    Publikationen indeholder øvematerialer, tekster, powerpointpræsentationer og handouts til undervisningsfaget Sproglig Metode og Analyse på BA og tilvalg i Dansk/Nordisk 2010-2011......Publikationen indeholder øvematerialer, tekster, powerpointpræsentationer og handouts til undervisningsfaget Sproglig Metode og Analyse på BA og tilvalg i Dansk/Nordisk 2010-2011...

  6. Therapy-associated late effects after irradiation of malignant diseases in childhood and adolescence. Feasibility analyses of a prospective multicenter register study; Behandlungsassoziierte Spaetfolgen nach Strahlentherapie maligner Erkrankungen im Kindes- und Jugendalter. Machbarkeitsanalyse einer prospektiven multizentrischen Registerstudie

    Energy Technology Data Exchange (ETDEWEB)

    Boelling, T.; Schuck, A.; Hesselmann, S.; Willich, N. [Klinik fuer Strahlentherapie, Universitaetsklinikum Muenster (Germany); Ruebe, C.; Speiser-Held, I. [Klinik fuer Strahlentherapie, Universitaetsklinikum Homburg/Saar (Germany); Pape, H. [Klinik fuer Strahlentherapie, Universitaetsklinikum Duesseldorf (Germany); Dieckmann, K. [Klinik fuer Strahlentherapie, Universitaetsklinikum Wien (Austria); Poellinger, B. [Klinik fuer Strahlentherapie, Universitaetsklinikum Muenchen (Germany); Kortmann, R.D. [Klinik fuer Strahlentherapie, Universitaetsklinikum Leipzig (Germany); Meyer, F.M. [Klinik fuer Strahlentherapie, Klinikum Augsburg (Germany); Martini, C. [Klinik fuer Strahlentherapie, Universitaetsklinikum Freiburg (Germany); Asadpour, B. [Klinik fuer Strahlentherapie, Universitaetsklinikum Aachen (Germany); Timmermann, B. [Paul-Scherrer-Inst. Villigen (Switzerland); Beck, J.D.; Langer, T.; Paulides, M. [Abt. fuer Paediatrische Onkologie, LESS-Zentrum, Universitaetskinderklinik Erlangen (Germany); Schmidt, B. [Klinik fuer Strahlentherapie, Katharinenhospital Stuttgart (Germany)

    2006-08-15

    Background and purpose: Radiogenic late effects in children and adolescents have been evaluated retrospectively in most analyses, with small patient numbers. The German Group of Pediatric Radiation Oncology (APRO) has generated a concept for a prospective evaluation of radiation-associated late effects in childhood. The aim of this study was to evaluate the feasibility of a nationwide central database for the documentation of radiation parameters and side effects of all children treated within therapy protocols of the German Society of Pediatric Oncology and Hematology (GPOH). Material and methods: A study center has been implemented in Muenster, the documentation has started in July 2001 in few centers in a pilot phase. Since February 2004 the documentation is done countrywide. Detailed documentation forms have been designed for treatment parameters and for doses applied at organs at risk. Furthermore, a uniform toxicity documentation, according to the RTOG/EORTC criteria, was chosen. Patients were reported from the study centers of the GPOH to the study center. All information was collected and analyzed in the study center. Results: Till July 31, 2205, 438 documentations of radiation and 579 toxicity documentations of side effects have been collected in the study center. 46 centers for radiotherapy in Germany and one center each in Austria and in Switzerland took part in the documentation. The quality of documentation regarding completeness and plausibility fulfilled the expected criteria in most cases. This feasibility analysis showed that important information about organ dose levels and side effects was documented in a large number of patients (Figures 1 and 2). Conclusion: This prospective evaluation of radiotherapy and radiogenic side effects in children and adolescents will allow correlating doses at organs at risk and the incidence of acute and late sequelae in Germany. Further documentations and a longer follow-up are necessary to obtain powerful results

  7. 遗传关联研究Meta分析中文文献方法学质量评价%Methodological quality of Meta-analyses regarding studies related to genetic association on papers published in Chinese journals

    Institute of Scientific and Technical Information of China (English)

    李帅; 方凯; 孙傲伊; 孙可欣; 胡永华

    2013-01-01

    目的 评价遗传关联研究Meta分析中文文献的方法学质量.方法 检索中国生物医学数据库、中国期刊全文数据库(CNKI)、万方数据资源系统和维普中国科技期刊全文数据库2012年12月前的遗传关联研究Meta分析文章.2名研究者独立按纳入排除标准进行文献筛选,意见不一致时咨询第三位研究者.运用系统综述评价工具(AMSTAR)量表对入选文献的方法学质量进行评价.结果 共纳入440篇文献.方法学质量得分平均为5.77分(满分11分).没有文章符合AMSTAR量表全部11项条目的要求.人选文章中,89.5%有前期设计方案,38.6%在纳入文献和信息提取方面有可重复性,72.7%实施了广泛文献检索,14.8%考虑了文献发表状态,10.9%提供了纳入和排除文献清单,92.5%描述了纳入文献特征,32.0%评估了文献质量,50.0%将文献质量用于结论推导,93.2%合并文献结果方法恰当,82.3%评估了发表偏倚,0.5%声明利益冲突.结论 遗传关联研究Meta分析中文文章方法学质量中等,在文献的筛选和信息提取、考虑文献的发表情况、提供纳入和排除文献清单、对文献进行质量评估、声明利益冲突等方面需要提高.%Objective To assess the methodological quality of Meta-analyses on papers published in Chinese journals regarding studies on genetic association.Methods Meta-analyses of genetic association study published in Chinese journals up to December 2012 had been searched through on 4 Chinese electronic databases (China biomedicine database,CNKI,Wanfang database and VIP Information).Articles independently selected by both two researchers under definite inclusion and exclusion criteria were included in this study (with consultation on a third researcher if inconsistent opinions existed).A Measurement Tool for the Assessment of Multiple Systematic Reviews (AMSTAR) checklist was used to evaluate the methodological quality together with the

  8. Laser Beam Focus Analyser

    DEFF Research Database (Denmark)

    Nielsen, Peter Carøe; Hansen, Hans Nørgaard; Olsen, Flemming Ove;

    2007-01-01

    The quantitative and qualitative description of laser beam characteristics is important for process implementation and optimisation. In particular, a need for quantitative characterisation of beam diameter was identified when using fibre lasers for micro manufacturing. Here the beam diameter limits...... the obtainable features in direct laser machining as well as heat affected zones in welding processes. This paper describes the development of a measuring unit capable of analysing beam shape and diameter of lasers to be used in manufacturing processes. The analyser is based on the principle of a rotating...... mechanical wire being swept through the laser beam at varying Z-heights. The reflected signal is analysed and the resulting beam profile determined. The development comprised the design of a flexible fixture capable of providing both rotation and Z-axis movement, control software including data capture...

  9. Report sensory analyses veal

    OpenAIRE

    Veldman, M.; Schelvis-Smit, A.A.M.

    2005-01-01

    On behalf of a client of Animal Sciences Group, different varieties of veal were analyzed by both instrumental and sensory analyses. The sensory evaluation was performed with a sensory analytical panel in the period of 13th of May and 31st of May, 2005. The three varieties of veal were: young bull, pink veal and white veal. The sensory descriptive analyses show that the three groups Young bulls, pink veal and white veal, differ significantly in red colour for the raw meat as well as the baked...

  10. Meta-analyses

    NARCIS (Netherlands)

    Hendriks, M.A.; Luyten, J.W.; Scheerens, J.; Sleegers, P.J.C.; Scheerens, J.

    2014-01-01

    In this chapter results of a research synthesis and quantitative meta-analyses of three facets of time effects in education are presented, namely time at school during regular lesson hours, homework, and extended learning time. The number of studies for these three facets of time that could be used

  11. Probabilistic safety analyses (PSA)

    International Nuclear Information System (INIS)

    The guide shows how the probabilistic safety analyses (PSA) are used in the design, construction and operation of light water reactor plants in order for their part to ensure that the safety of the plant is good enough in all plant operational states

  12. Wavelet Analyses and Applications

    Science.gov (United States)

    Bordeianu, Cristian C.; Landau, Rubin H.; Paez, Manuel J.

    2009-01-01

    It is shown how a modern extension of Fourier analysis known as wavelet analysis is applied to signals containing multiscale information. First, a continuous wavelet transform is used to analyse the spectrum of a nonstationary signal (one whose form changes in time). The spectral analysis of such a signal gives the strength of the signal in each…

  13. Report sensory analyses veal

    NARCIS (Netherlands)

    Veldman, M.; Schelvis-Smit, A.A.M.

    2005-01-01

    On behalf of a client of Animal Sciences Group, different varieties of veal were analyzed by both instrumental and sensory analyses. The sensory evaluation was performed with a sensory analytical panel in the period of 13th of May and 31st of May, 2005. The three varieties of veal were: young bull,

  14. Possible future HERA analyses

    CERN Document Server

    Geiser, Achim

    2015-01-01

    A variety of possible future analyses of HERA data in the context of the HERA data preservation programme is collected, motivated, and commented. The focus is placed on possible future analyses of the existing $ep$ collider data and their physics scope. Comparisons to the original scope of the HERA programme are made, and cross references to topics also covered by other participants of the workshop are given. This includes topics on QCD, proton structure, diffraction, jets, hadronic final states, heavy flavours, electroweak physics, and the application of related theory and phenomenology topics like NNLO QCD calculations, low-x related models, nonperturbative QCD aspects, and electroweak radiative corrections. Synergies with other collider programmes are also addressed. In summary, the range of physics topics which can still be uniquely covered using the existing data is very broad and of considerable physics interest, often matching the interest of results from colliders currently in operation. Due to well-e...

  15. Statistisk analyse med SPSS

    OpenAIRE

    Linnerud, Kristin; Oklevik, Ove; Slettvold, Harald

    2004-01-01

    Dette notatet har sitt utspring i forelesninger og undervisning for 3.års studenter i økonomi og administrasjon ved høgskolen i Sogn og Fjordane. Notatet er særlig lagt opp mot undervisningen i SPSS i de to kursene ”OR 685 Marknadsanalyse og merkevarestrategi” og ”BD 616 Økonomistyring og analyse med programvare”.

  16. Biomass feedstock analyses

    Energy Technology Data Exchange (ETDEWEB)

    Wilen, C.; Moilanen, A.; Kurkela, E. [VTT Energy, Espoo (Finland). Energy Production Technologies

    1996-12-31

    The overall objectives of the project `Feasibility of electricity production from biomass by pressurized gasification systems` within the EC Research Programme JOULE II were to evaluate the potential of advanced power production systems based on biomass gasification and to study the technical and economic feasibility of these new processes with different type of biomass feed stocks. This report was prepared as part of this R and D project. The objectives of this task were to perform fuel analyses of potential woody and herbaceous biomasses with specific regard to the gasification properties of the selected feed stocks. The analyses of 15 Scandinavian and European biomass feed stock included density, proximate and ultimate analyses, trace compounds, ash composition and fusion behaviour in oxidizing and reducing atmospheres. The wood-derived fuels, such as whole-tree chips, forest residues, bark and to some extent willow, can be expected to have good gasification properties. Difficulties caused by ash fusion and sintering in straw combustion and gasification are generally known. The ash and alkali metal contents of the European biomasses harvested in Italy resembled those of the Nordic straws, and it is expected that they behave to a great extent as straw in gasification. Any direct relation between the ash fusion behavior (determined according to the standard method) and, for instance, the alkali metal content was not found in the laboratory determinations. A more profound characterisation of the fuels would require gasification experiments in a thermobalance and a PDU (Process development Unit) rig. (orig.) (10 refs.)

  17. Possible future HERA analyses

    Energy Technology Data Exchange (ETDEWEB)

    Geiser, Achim

    2015-12-15

    A variety of possible future analyses of HERA data in the context of the HERA data preservation programme is collected, motivated, and commented. The focus is placed on possible future analyses of the existing ep collider data and their physics scope. Comparisons to the original scope of the HERA pro- gramme are made, and cross references to topics also covered by other participants of the workshop are given. This includes topics on QCD, proton structure, diffraction, jets, hadronic final states, heavy flavours, electroweak physics, and the application of related theory and phenomenology topics like NNLO QCD calculations, low-x related models, nonperturbative QCD aspects, and electroweak radiative corrections. Synergies with other collider programmes are also addressed. In summary, the range of physics topics which can still be uniquely covered using the existing data is very broad and of considerable physics interest, often matching the interest of results from colliders currently in operation. Due to well-established data and MC sets, calibrations, and analysis procedures the manpower and expertise needed for a particular analysis is often very much smaller than that needed for an ongoing experiment. Since centrally funded manpower to carry out such analyses is not available any longer, this contribution not only targets experienced self-funded experimentalists, but also theorists and master-level students who might wish to carry out such an analysis.

  18. Digital differential analysers

    CERN Document Server

    Shilejko, A V; Higinbotham, W

    1964-01-01

    Digital Differential Analysers presents the principles, operations, design, and applications of digital differential analyzers, a machine with the ability to present initial quantities and the possibility of dividing them into separate functional units performing a number of basic mathematical operations. The book discusses the theoretical principles underlying the operation of digital differential analyzers, such as the use of the delta-modulation method and function-generator units. Digital integration methods and the classes of digital differential analyzer designs are also reviewed. The te

  19. Wavelet analyses and applications

    Energy Technology Data Exchange (ETDEWEB)

    Bordeianu, Cristian C [Faculty of Physics, University of Bucharest, Bucharest, RO 077125 (Romania); Landau, Rubin H [Department of Physics, Oregon State University, Corvallis, OR 97331 (United States); Paez, Manuel J [Department of Physics, University of Antioquia, Medellin (Colombia)], E-mail: cristian.bordeianu@brahms.fizica.unibuc.ro, E-mail: rubin@science.oregonstate.edu, E-mail: mpaez@fisica.udea.edu.co

    2009-09-15

    It is shown how a modern extension of Fourier analysis known as wavelet analysis is applied to signals containing multiscale information. First, a continuous wavelet transform is used to analyse the spectrum of a nonstationary signal (one whose form changes in time). The spectral analysis of such a signal gives the strength of the signal in each frequency as a function of time. Next, the theory is specialized to discrete values of time and frequency, and the resulting discrete wavelet transform is shown to be useful for data compression. This paper is addressed to a broad community, from undergraduate to graduate students to general physicists and to specialists in other fields than wavelets.

  20. Systemdynamisk analyse av vannkraftsystem

    OpenAIRE

    Rydning, Anja

    2007-01-01

    I denne oppgaven er det gjennomført en dynamisk analyse av vannkraftverket Fortun kraftverk. Tre fenomener er særlig vurdert i denne oppgaven: Sjaktsvingninger mellom svingesjakt og magasin, trykkstøt ved turbinen som følge av retardasjonstrykk ved endring i turbinvannføringen og reguleringsstabilitet. Sjaktsvingningene og trykkstøt beregnes analytisk ut fra kontinuitets- og bevegelsesligningen. Modeller av Fortun kraftverk er laget for å beregne trykkstøt og sjaktsvingninger. En modell e...

  1. AMS analyses at ANSTO

    Energy Technology Data Exchange (ETDEWEB)

    Lawson, E.M. [Australian Nuclear Science and Technology Organisation, Lucas Heights, NSW (Australia). Physics Division

    1998-03-01

    The major use of ANTARES is Accelerator Mass Spectrometry (AMS) with {sup 14}C being the most commonly analysed radioisotope - presently about 35 % of the available beam time on ANTARES is used for {sup 14}C measurements. The accelerator measurements are supported by, and dependent on, a strong sample preparation section. The ANTARES AMS facility supports a wide range of investigations into fields such as global climate change, ice cores, oceanography, dendrochronology, anthropology, and classical and Australian archaeology. Described here are some examples of the ways in which AMS has been applied to support research into the archaeology, prehistory and culture of this continent`s indigenous Aboriginal peoples. (author)

  2. EEG analyses with SOBI.

    Energy Technology Data Exchange (ETDEWEB)

    Glickman, Matthew R.; Tang, Akaysha (University of New Mexico, Albuquerque, NM)

    2009-02-01

    The motivating vision behind Sandia's MENTOR/PAL LDRD project has been that of systems which use real-time psychophysiological data to support and enhance human performance, both individually and of groups. Relevant and significant psychophysiological data being a necessary prerequisite to such systems, this LDRD has focused on identifying and refining such signals. The project has focused in particular on EEG (electroencephalogram) data as a promising candidate signal because it (potentially) provides a broad window on brain activity with relatively low cost and logistical constraints. We report here on two analyses performed on EEG data collected in this project using the SOBI (Second Order Blind Identification) algorithm to identify two independent sources of brain activity: one in the frontal lobe and one in the occipital. The first study looks at directional influences between the two components, while the second study looks at inferring gender based upon the frontal component.

  3. Network class superposition analyses.

    Science.gov (United States)

    Pearson, Carl A B; Zeng, Chen; Simha, Rahul

    2013-01-01

    Networks are often used to understand a whole system by modeling the interactions among its pieces. Examples include biomolecules in a cell interacting to provide some primary function, or species in an environment forming a stable community. However, these interactions are often unknown; instead, the pieces' dynamic states are known, and network structure must be inferred. Because observed function may be explained by many different networks (e.g., ≈ 10(30) for the yeast cell cycle process), considering dynamics beyond this primary function means picking a single network or suitable sample: measuring over all networks exhibiting the primary function is computationally infeasible. We circumvent that obstacle by calculating the network class ensemble. We represent the ensemble by a stochastic matrix T, which is a transition-by-transition superposition of the system dynamics for each member of the class. We present concrete results for T derived from boolean time series dynamics on networks obeying the Strong Inhibition rule, by applying T to several traditional questions about network dynamics. We show that the distribution of the number of point attractors can be accurately estimated with T. We show how to generate Derrida plots based on T. We show that T-based Shannon entropy outperforms other methods at selecting experiments to further narrow the network structure. We also outline an experimental test of predictions based on T. We motivate all of these results in terms of a popular molecular biology boolean network model for the yeast cell cycle, but the methods and analyses we introduce are general. We conclude with open questions for T, for example, application to other models, computational considerations when scaling up to larger systems, and other potential analyses. PMID:23565141

  4. Clobazam is equally safe and efficacious for seizures associated with Lennox-Gastaut syndrome across different age groups: Post hoc analyses of short- and long-term clinical trial results.

    Science.gov (United States)

    Ng, Yu-Tze; Conry, Joan; Mitchell, Wendy G; Buchhalter, Jeffrey; Isojarvi, Jouko; Lee, Deborah; Drummond, Rebecca; Chung, Steve

    2015-05-01

    The peak age at onset of Lennox-Gastaut syndrome (LGS) is between 3 and 5years. Patients with LGS frequently experience multiple types of treatment-refractory seizures and require lifelong therapy with several antiepileptic drugs. Here, post hoc analyses of clinical trials (phase III trial OV-1012 and open-label extension trial OV-1004) provide short- and long-term efficacy and safety data of adjunctive clobazam in patients with LGS stratified by age at baseline (≥2 to LGS.

  5. Website-analyse

    DEFF Research Database (Denmark)

    Thorlacius, Lisbeth

    2009-01-01

    planlægning af de funktionelle og indholdsmæssige aspekter ved websites. Der findes en stor mængde teori- og metodebøger, som har specialiseret sig i de tekniske problemstillinger i forbindelse med interaktion og navigation, samt det sproglige indhold på websites. Den danske HCI (Human Computer Interaction...... hyperfunktionelle websites. Det primære ærinde for HCI-eksperterne er at udarbejde websites, som er brugervenlige. Ifølge deres direktiver skal websites være opbygget med hurtige og effektive navigations- og interaktionsstrukturer, hvor brugeren kan få sine informationer ubesværet af lange downloadingshastigheder...... eller blindgyder, når han/hun besøger sitet. Studier i design og analyse af de visuelle og æstetiske aspekter i planlægning og brug af websites har imidlertid kun i et begrænset omfang været under reflektorisk behandling. Det er baggrunden for dette kapitel, som indleder med en gennemgang af æstetikkens...

  6. Hierarchical regression for analyses of multiple outcomes.

    Science.gov (United States)

    Richardson, David B; Hamra, Ghassan B; MacLehose, Richard F; Cole, Stephen R; Chu, Haitao

    2015-09-01

    In cohort mortality studies, there often is interest in associations between an exposure of primary interest and mortality due to a range of different causes. A standard approach to such analyses involves fitting a separate regression model for each type of outcome. However, the statistical precision of some estimated associations may be poor because of sparse data. In this paper, we describe a hierarchical regression model for estimation of parameters describing outcome-specific relative rate functions and associated credible intervals. The proposed model uses background stratification to provide flexible control for the outcome-specific associations of potential confounders, and it employs a hierarchical "shrinkage" approach to stabilize estimates of an exposure's associations with mortality due to different causes of death. The approach is illustrated in analyses of cancer mortality in 2 cohorts: a cohort of dioxin-exposed US chemical workers and a cohort of radiation-exposed Japanese atomic bomb survivors. Compared with standard regression estimates of associations, hierarchical regression yielded estimates with improved precision that tended to have less extreme values. The hierarchical regression approach also allowed the fitting of models with effect-measure modification. The proposed hierarchical approach can yield estimates of association that are more precise than conventional estimates when one wishes to estimate associations with multiple outcomes. PMID:26232395

  7. Resonances in the rotational constants of 0_{g}^{-}(6s_{1/2}+6p_{1/2}) Cs2 levels analysed by an improved-Bv-formula associated to a 2-channel model

    Science.gov (United States)

    Jelassi, Haikel; Pruvost, Laurence

    2016-08-01

    Spin-orbit coupling in 0g-(6s1/2+6p1/2) long-range molecular levels of Cs2 assigned to resonances in the rotational constant (Bv) spectrum (Lignier L. et al., Phys. Chem. Chem. Phys., 13 (2011) 18910; Pichler M. et al., J. Chem. Phys., 121 (2004) 1796) has been analyzed with a model which associates an improved-B v -formula (established here) and a 2-channel model. The approach explains the Lorentzian shape of the observed resonances superimposing a non-horizontal background and the fit of the B v -spectrum allows us to deduce the spin-orbit coupling parameters. We compare this approach with an analysis of the binding energies using the vibrational quantum defect (VQD). The good agreement between the methods lets one conclude that the improved-B v -formula associated with a 2-channel model provides a pertinent approach for analyzing coupled molecular series.

  8. Analyses of the role of the glucocorticoid receptor gene polymorphism (rs41423247) as a potential moderator in the association between childhood overweight, psychopathology, and clinical outcomes in Eating Disorders patients: A 6 years follow up study.

    Science.gov (United States)

    Castellini, Giovanni; Lelli, Lorenzo; Tedde, Andrea; Piaceri, Irene; Bagnoli, Silvia; Lucenteforte, Ersilia; Sorbi, Sandro; Monteleone, Alessio Maria; Hudziak, James J; Nacmias, Benedetta; Ricca, Valdo

    2016-09-30

    Childhood overweight and the SNP rs41423247 of the glucocorticoid receptor gene (GR) were reported to represent predisposing factors for Eating Disorders (EDs). The distribution of the polymorphism was evaluated in 202 EDs patients, and in 116 healthy subjects. The Structured Clinical Interview for the DSM-IV and self-reported questionnaires were administered at the admission to the clinic and at 3 time points (end of a cognitive behavioral therapy, 3 and 6 years follow up). G-allele was associated with childhood overweight, depressive disorder comorbidity, and diagnostic instability. G-allele carriers reporting childhood overweight showed greater frequency of subjective binge eating and emotional eating.

  9. Artificial Coronary Vascular Stents Fabrication Using the Biodegradable Material Compounds: PLA-PGA-co-Chitosan%可完全生物降解材料聚乳酸-聚羟基乙酸复合壳聚糖在人工心血管支架制备中的应用

    Institute of Scientific and Technical Information of China (English)

    郭清奎; 吕志前

    2011-01-01

    The first two generation scaffolds, bare metal stents (BMS) and drug eluting stents (DES) , have been widely used in the treatment of coronary heart diseases. However, long term incidences of major adverse cardiovascular events and revascularization treatments are still high because of in-stent re-stenosis and thrombosis. These may be caused by chronic inflammations and vascular wall damages due to persistent metal stents stimulation. The eluting drugs within metal stents could also disturb normal growth of vascular endothelial cell, intima, tunica media, smooth muscle and epimysium. Therefore, several fully biodegradable scaffolds and drug carried stents had been manufactured using polymers polyester, polycarbonate and polyphosphate, etc. Recently, tissue and blood compatibility securities of present implanted artificial cardiovascular stents manufactured with copolymer materials had been confirmed. However, these stents could not meet the clinical demands because of the respective problems of degradation, material rigidity, flexibility and nonuniformity of support strength. This paper reviews the current and perspective application of polylactic acid (PLA) , polyglycolic acid (PGA) and chitosan in the fabrication of fully biodegradable artificial coronary vascular scaffolds.%裸金属支架(bare metal stents,BMS)和涂层支架(drug eluting stents,DES)介入治疗冠心病已在临床广泛应用,但由于金属支架的异物刺激或携带药物的干扰容易引起支架内再狭窄和血管栓塞,由聚酯、聚碳酸酐及聚磷酸酯等高分子材料制备的完全可生物降解吸收支架及药物洗脱支架应运而生.目前由共聚物材料制备的人工心血管植入支架的安全性、组织及血液相容性已得到证实,然而这些支架具有各自的问题,如降解的速度、材料的柔韧度、硬度以及支撑力不均一等,尚不能满足实际应用的要求.本文就聚乳酸(polylactic acid

  10. Comparative study of bridge plate associated to the intramedullary pin and the dynamic compression plate on the experimental osteotomy fixation of femoral in rabbits (Oryctolagus cuniculus). Clinical, radiographic, histological and scintigraphy analyses

    International Nuclear Information System (INIS)

    The objectives were to benchmark and monitor the fracture healing of femoral osteotomy in rabbits after fixation with dynamic compression plate and bridge plate associated with intramedullary pin. Were used 14 New Zealand rabbits, four months old with mean weight of 3.5 pounds, from the Experimental Farm Professor Helio Barbosa of the Veterinary School of Minas Gerais Federal Univ. (UFMG). The animals were randomly divided into two groups (I and II). All rabbits underwent osteotomy across the middle third of right femur. In the group I was made to fix the osteotomy with the bridge plate (BP) associated with intramedullary pin, introduced the technique of minimal invasion. In group II, we used dynamic compression plate (DCP) via the conventional approach. Both groups were evaluated clinical, radiographic, histologic and scintigraphic findings. Clinical assessments were performed weekly until the 12th postoperative week and radiographic examinations were performed before, immediately after, at 15, 30, 45, 60 and 90 days. The bone scintigraphy were performed before and at 20, 50 and 90 days after surgery to monitor the bone metabolism qualitatively and quantitatively. Observed perfusion and bone healing process. After 90 days of study, there was histopathologic evaluation of the osteotomized area and the insertion of screws. In the region of the osteotomy was observed predominance of trabecular bone in group I and group II, the predominance of bone osteons, compatible with the original bone. On insertion of the screws did not differ between groups and there was cortical discontinuity, little necrosis and local hemorrhage. The two types of fixation have led to consolidation within the scheduled period, maturing in early fixation with DCP fixation compared with BP. Scintigraphy demonstrated by the indices of activity and image characteristics, the process of bone healing was significantly greater in animals undergoing early fixation with DCP. (author)

  11. Seismic stability analyses - embankment dams

    Energy Technology Data Exchange (ETDEWEB)

    Boudreau, Stephane; Boulanger, Pierre; Caron, Louis Philippe [BPR, Montreal, (Canada); Karray, Mourad [Sherbrooke University, Sherbrooke, (Canada)

    2010-07-01

    An understanding of the effect of earthquakes is necessary to the design of safe dams. A wide number of methods are currently used or being developed for analysing the dynamic slop stability of embankments/dams. This paper investigated the effects of the dynamic aspects (natural period, amplifications and intensity of seismic loading) in the analysis of small dams. A procedure was developed to evaluate the performance of pseudo-static analyses by comparison with fully dynamic analyses. Static, pseudo-static, and dynamic analyses were performed using finite elements and Mohr-Coulomb shear strength criteria. The overall safety factor (FS) was compared using the reduction factor concept. The study worked on two examples of small dams located at moderate and violent seismic regions in the province of Quebec. These examples illustrated the difference between pseudo-static and dynamic analyses. The study also investigated the values of the kh coefficient for Eastern Canada seismicity.

  12. 生物可降解材料聚乳酸/聚羟基乙酸复合壳聚糖在人工冠状动脉血管支架制备中的应用%Artificial Coronary Vascular Stents Fabrication Using Biodegradable Material Compounds of PLA/PGA-co-Chitosan

    Institute of Scientific and Technical Information of China (English)

    郭清奎

    2012-01-01

    The first generation scaffolds of bare metal stents (BMS) and the second generation of drug eluting stents (DES) have been widely used in the treatment of coronary heart diseases. However, long term incidences of major adverse cardiovascular events and revascularization treatments are still high because of in-stent re-stenosis and thrombosis. These may be caused by chronic inflammations and vascular wall damages due to persistent metal stents stimulation. What's more, the eluting drugs within metal stents could also disturb normal growth of vascular endothelial cell, intima, tunica media, smooth muscle and epimysium. Therefore, in order to meet these demands several fully biodegradable scaffolds and drug carried stents have been manufactured using polymers polyester, polycarbonate and polyphosphate, etc. Among them, the security and histo-and hemo-compatibilities of coronary scaffolds made from poly-lactic acid (PLA), poly-glycolic acid (PGA), chitosan as coating, poly-caprolactone (PCL) and other copolymer like poly-lactic-co-glycolic acid (PLGA) have been testified to be sound. Nevertheless, there exist several different shortages for these stents such as tensile strength deficiency and slow degradation. PLA is hard and brittle with slow degradation, while PGA is soft with insufficient support force and fast degradation. Whether stents degrade too fast or too slow, they could not supply sufficient strength and effective support after implantation, and also they may cause target vascular injuries and elastic shrink inducing restenosis and thrombosis in long terms. Using optimized molar ratio component of PLA and PGA with chitosan coating, we can get sound composite materials with better biocompatibility, moderate degradation (approximately 3 - 6 months of complete degradation), adequate mechanical strength, lower inflammatory response and good range of extension, and establish an experiment ground for fully biodegradable vascular scaffolds fabrication.%第一代

  13. Testing alternative tectonic models of Palaeotethys in the E Mediterranean region: new U-Pb and Lu-Hf isotopic analyses of detrital zircons from Late Carboniferous and Late Triassic sandstones associated with the Anatolide and Tauride blocks (S Turkey)

    Science.gov (United States)

    Ustaömer, Timur; Ayda Ustaömer, Petek; Robertson, Alastair; Gerdes, Axel

    2016-04-01

    Alternative tectonic models of Palaeotethys during Late Palaeozoic-Early Mesozoic time infer: 1. southward subduction beneath the north margin of Gondwana; 2. northward subduction beneath the south margin of Eurasia, or 3. double subduction (northwards and southwards), at least during Late Carboniferous. U-Pb and Lu-Hf isotopic analysis of detrital zircons, extracted from sandstones, can provide strong indications of age and identity of source terranes. Here, we consider the provenance of both Late Carboniferous and Late Triassic sandstones from both relatively allochthonous and relatively autochthonous units that are all spatially associated with the Anatolide and Tauride continental blocks. The relatively allochthonous units are sandstones (3 samples) from the Late Carboniferous Aladaǧ Nappe (Tauride; in the east), the Konya Complex (Anatolide; central area) and the Karaburun Mélange (Tauride-related; in the west). The relatively autochthonous units are Late Triassic sandstones (4 samples) from the Üzümdere Formation, the Kasımlar Formation (both western Taurides) and the Güvercinlik Formation (Karaburun Peninsula-Tauride related; far west). The Late Carboniferous sandstones from the three relatively allochthonous units are dominated by Precambrian zircon populations, the age distribution of which suggests derivation from two contrasting source regions: First, a NE African-type source (i.e. Saharan craton) for the sandstones of the Konya Mélange and the Aladaǧ Nappe because these sediments have prominent zircon populations dated at 0.5-0.7, 0.8 and 0.9-1.1 Ga. Palaeozoic zircons are minimal in the sandstones of the Aladaǧ Nappe and the Konya Complex (3 and 5% of the whole data, respectively) and are confined to Cambrian to Ordovician. Secondly, a contrasting NW African-type source is inferred for sandstone from the Karaburun Mélange because of the marked absence of Tonian-Stenian zircons and the predominance of ~2 Ga zircons over ~2.5 Ga zircons. In

  14. Feed analyses and their interpretation.

    Science.gov (United States)

    Hall, Mary Beth

    2014-11-01

    Compositional analysis is central to determining the nutritional value of feedstuffs for use in ration formulation. The utility of the values and how they should be used depends on how representative the feed subsample is, the nutritional relevance and analytical variability of the assays, and whether an analysis is suitable to be applied to a particular feedstuff. Commercial analyses presently available for carbohydrates, protein, and fats have improved nutritionally pertinent description of feed fractions. Factors affecting interpretation of feed analyses and the nutritional relevance and application of currently available analyses are discussed.

  15. Conjoint-Analyse und Marktsegmentierung

    OpenAIRE

    Steiner, Winfried J.; Baumgartner, Bernhard

    2003-01-01

    Die Marktsegmentierung zählt neben der Neuproduktplanung und Preisgestaltung zu den wesentlichen Einsatzgebieten der Conjoint-Analyse. Neben traditionell eingesetzten zweistufigen Vorgehensweisen, bei denen Conjoint-Analyse und Segmentierung in zwei getrennten Schritten erfolgen, stehen heute mit Methoden wie der Clusterwise Regression oder Mixture-Modellen neuere Entwicklungen, die eine simultane Segmentierung und Präferenzschätzung ermöglichen, zur Verfügung. Der Beitrag gibt einen Überblic...

  16. Methods and procedures for shielding analyses for the SNS

    International Nuclear Information System (INIS)

    In order to provide radiologically safe Spallation Neutron Source operation, shielding analyses are performed according to Oak Ridge National Laboratory internal regulations and to comply with the Code of Federal Regulations. An overview of on-going shielding work for the accelerator facility and neutrons beam lines, methods used for the analyses, and associated procedures and regulations are presented. Methods used to perform shielding analyses are described as well. (author)

  17. What's missing from avian global diversification analyses?

    Science.gov (United States)

    Reddy, Sushma

    2014-08-01

    The accumulation of vast numbers of molecular phylogenetic studies has contributed to huge knowledge gains in the evolutionary history of birds. This permits subsequent analyses of avian diversity, such as how and why diversification varies across the globe and among taxonomic groups. However, available genetic data for these meta-analyses are unevenly distributed across different geographic regions and taxonomic groups. To comprehend the impact of this variation on the interpretation of global diversity patterns, I examined the availability of genetic data for possible biases in geographic and taxonomic sampling of birds. I identified three main disparities of sampling that are geographically associated with latitude (temperate, tropical), hemispheres (East, West), and range size. Tropical regions, which host the vast majority of species, are substantially less studied. Moreover, Eastern regions, such as the Old World Tropics and Australasia, stand out as being disproportionately undersampled, with up to half of communities not being represented in recent studies. In terms of taxonomic discrepancies, a majority of genetically undersampled clades are exclusively found in tropical regions. My analysis identifies several disparities in the key regions of interest of global diversity analyses. Differential sampling can have considerable impacts on these global comparisons and call into question recent interpretations of latitudinal or hemispheric differences of diversification rates. Moreover, this review pinpoints understudied regions whose biota are in critical need of modern systematic analyses.

  18. Summary of Prometheus Radiation Shielding Nuclear Design Analyses , for information

    International Nuclear Information System (INIS)

    This report transmits a summary of radiation shielding nuclear design studies performed to support the Prometheus project. Together, the enclosures and references associated with this document describe NRPCT (KAPL and Bettis) shielding nuclear design analyses done for the project

  19. ANALYSES ON DIFFERENTIALLY EXPRESSED GENES ASSOCIATED WITH HUMAN BREAST CANCER

    Institute of Scientific and Technical Information of China (English)

    MENG Xu-li; DING Xiao-wen; XU Xiao-hong

    2006-01-01

    Objective: To investigate the molecular etiology of breast cancer by way of studying the differential expression and initial function of the related genes in the occurrence and development of breast cancer. Methods: Two hundred and eighty-eight human tumor related genes were chosen for preparation of the oligochips probe. mRNA was extracted from 16 breast cancer tissues and the corresponding normal breast tissues, and cDNA probe was prepared through reverse-transcription and hybridized with the gene chip. A laser focused fluorescent scanner was used to scan the chip. The different gene expressions were thereafter automatically compared and analyzed between the two sample groups. Cy3/Cy5>3.5 meant significant up-regulation. Cy3/Cy5<0.25 meant significant down-regulation. Results: The comparison between the breast cancer tissues and their corresponding normal tissues showed that 84 genes had differential expression in the Chip. Among the differently expressed genes, there were 4 genes with significant down-regulation and 6 with significant up-regulation. Compared with normal breast tissues, differentially expressed genes did partially exist in the breast cancer tissues. Conclusion: Changes in multi-gene expression regulations take place during the occurrence and development of breast cancer; and the research on related genes can help understanding the mechanism of tumor occurrence.

  20. Mitogenomic analyses from ancient DNA

    DEFF Research Database (Denmark)

    Paijmans, Johanna L.A.; Gilbert, M Thomas P; Hofreiter, Michael

    2013-01-01

    analyses (whether using modern or ancient DNA) were largely restricted to the analysis of short fragments of the mitochondrial genome. However, due to many technological advances during the past decade, a growing number of studies have explored the power of complete mitochondrial genome sequences...... (mitogenomes). Such studies were initially limited to analyses of extant organisms, but developments in both DNA sequencing technologies and general methodological aspects related to working with degraded DNA have resulted in complete mitogenomes becoming increasingly popular for ancient DNA studies as well....... To date, at least 124 partially or fully assembled mitogenomes from more than 20 species have been obtained, and, given the rapid progress in sequencing technology, this number is likely to dramatically increase in the future. The increased information content offered by analysing full mitogenomes has...

  1. An extensible analysable system model

    DEFF Research Database (Denmark)

    Probst, Christian W.; Hansen, Rene Rydhof

    2008-01-01

    , this does not hold for real physical systems. Approaches such as threat modelling try to target the formalisation of the real-world domain, but still are far from the rigid techniques available in security research. Many currently available approaches to assurance of critical infrastructure security......Analysing real-world systems for vulnerabilities with respect to security and safety threats is a difficult undertaking, not least due to a lack of availability of formalisations for those systems. While both formalisations and analyses can be found for artificial systems such as software...

  2. pH响应的包覆超顺磁性纳米颗粒的γ-聚谷氨酸二级结构研究%Study on the pH-Sensitive Secondary Structure of γ-PGA Embedded with Magnetite Nanoparticles

    Institute of Scientific and Technical Information of China (English)

    张菊花; 邢建民; 江洋洋; 高红帅; 刘会洲

    2009-01-01

    用傅里叶红外光谱法(FTIR)定量研究了pH对包覆超顺磁性纳米颗粒的γ-聚谷氨酸(γ-PGA)二级结构变化的影响.结合傅里叶去卷积技术和二阶导数法对原始谱带(酰胺Ⅰ带)进行高斯拟合,计算了二级结构的相对百分含量.红外结果显示:pH变化影响γ-PGA的二级结构.γ-聚谷氨酸磁性纳米微球中γ-PGA的β-折叠和β-转角的总含量很大,达65%以上,而α-螺旋和无规卷曲的含量则比较少.随着pH值的增大,β-折叠的含量逐渐减少相反β-转角的含量逐渐增大.γ-PGA二级结构变化与γ-聚谷氨酸磁性纳米微球在水溶液的稳定性有关.考察了γ-聚谷氨酸纳米微球的zeta电位随pH的变化.结果表明,pH为10.2时zeta电位出现极小值,其绝对值最大,颗粒稳定性最好.

  3. Descriptive Analyses of Mechanical Systems

    DEFF Research Database (Denmark)

    Andreasen, Mogens Myrup; Hansen, Claus Thorp

    2003-01-01

    Forord Produktanalyse og teknologianalyse kan gennmføres med et bredt socio-teknisk sigte med henblik på at forstå kulturelle, sociologiske, designmæssige, forretningsmæssige og mange andre forhold. Et delområde heri er systemisk analyse og beskrivelse af produkter og systemer. Nærværende kompend...

  4. Evaluation "Risk analyses of agroparks"

    NARCIS (Netherlands)

    Ge, L.

    2011-01-01

    Dit TransForum project richt zich op analyse van de onzekerheden en mogelijkheden van agroparken. Dit heeft geleid tot een risicomodel dat de kwalitatieve en/of kwantitatieve onzekerheden van een agropark project in kaart brengt. Daarmee kunnen maatregelen en managementstrategiën worden geïdentifice

  5. Large scale breeder reactor pump dynamic analyses

    International Nuclear Information System (INIS)

    The lateral natural frequency and vibration response analyses of the Large Scale Breeder Reactor (LSBR) primary pump were performed as part of the total dynamic analysis effort to obtain the fabrication release. The special features of pump modeling are outlined in this paper. The analysis clearly demonstrates the method of increasing the system natural frequency by reducing the generalized mass without significantly changing the generalized stiffness of the structure. Also, a method of computing the maximum relative and absolute steady state responses and associated phase angles at given locations is provided. This type of information is very helpful in generating response versus frequency and phase angle versus frequency plots

  6. Deterministic analyses of severe accident issues

    International Nuclear Information System (INIS)

    Severe accidents in light water reactors involve complex physical phenomena. In the past there has been a heavy reliance on simple assumptions regarding physical phenomena alongside of probability methods to evaluate risks associated with severe accidents. Recently GE has developed realistic methodologies that permit deterministic evaluations of severe accident progression and of some of the associated phenomena in the case of Boiling Water Reactors (BWRs). These deterministic analyses indicate that with appropriate system modifications, and operator actions, core damage can be prevented in most cases. Furthermore, in cases where core-melt is postulated, containment failure can either be prevented or significantly delayed to allow sufficient time for recovery actions to mitigate severe accidents

  7. Analyse du discours et archive

    OpenAIRE

    Maingueneau, Dominique

    2007-01-01

    Les recherches qui se réclament de "l’analyse du discours" connaissent un développement considérable dans le monde entier ; en revanche, "l’école française d’analyse du discours" (AD) traverse une crise d’identité depuis le début des années 80. Dans cet exposé nous voudrions explorer les raisons de cette crise, puis préciser le concept d’archive qui, à notre sens, permet de prolonger la voie ouverte à la fin des années 1960. Mais il ne s’agit que d’une des voies possibles, dès lors que, comme...

  8. Workload analyse of assembling process

    Science.gov (United States)

    Ghenghea, L. D.

    2015-11-01

    The workload is the most important indicator for managers responsible of industrial technological processes no matter if these are automated, mechanized or simply manual in each case, machines or workers will be in the focus of workload measurements. The paper deals with workload analyses made to a most part manual assembling technology for roller bearings assembling process, executed in a big company, with integrated bearings manufacturing processes. In this analyses the delay sample technique have been used to identify and divide all bearing assemblers activities, to get information about time parts from 480 minutes day work time that workers allow to each activity. The developed study shows some ways to increase the process productivity without supplementary investments and also indicated the process automation could be the solution to gain maximum productivity.

  9. Analysing Protocol Stacks for Services

    DEFF Research Database (Denmark)

    Gao, Han; Nielson, Flemming; Nielson, Hanne Riis

    2011-01-01

    We show an approach, CaPiTo, to model service-oriented applications using process algebras such that, on the one hand, we can achieve a certain level of abstraction without being overwhelmed by the underlying implementation details and, on the other hand, we respect the concrete industrial standa...... to the financial case study taken from Chapter 0-3. Finally, we develop a static analysis to analyse the security properties as they emerge at the level of concrete industrial protocols....

  10. Tematisk analyse af amerikansk hiphop

    OpenAIRE

    Tranberg-Hansen, Katrine; Bøgh Larsen, Cecilie; Jeppsson,Louise Emilie; Lindberg Kirkegaard, Nanna; Funch Madsen, Signe; Bülow Bach, Maria

    2013-01-01

    This paper examines the possible development in the function of American hiphop. It focuses on specific themes like ghetto, freedom, rebellion, and racial discrimination in hiphop music. To investigate this possible development two text analysis methods are used: a pragmatic and a stylistic text analysis, and a historical method is used: a source criticism. A minimal amount of literature has been published on how hiphop culture arose. The-­‐ se studies, however, make it possible to analyse...

  11. Mitogenomic analyses of eutherian relationships.

    Science.gov (United States)

    Arnason, U; Janke, A

    2002-01-01

    Reasonably correct phylogenies are fundamental to the testing of evolutionary hypotheses. Here, we present phylogenetic findings based on analyses of 67 complete mammalian mitochondrial (mt) genomes. The analyses, irrespective of whether they were performed at the amino acid (aa) level or on nucleotides (nt) of first and second codon positions, placed Erinaceomorpha (hedgehogs and their kin) as the sister group of remaining eutherians. Thus, the analyses separated Erinaceomorpha from other traditional lipotyphlans (e.g., tenrecs, moles, and shrews), making traditional Lipotyphla polyphyletic. Both the aa and nt data sets identified the two order-rich eutherian clades, the Cetferungulata (comprising Pholidota, Carnivora, Perissodactyla, Artiodactyla, and Cetacea) and the African clade (Tenrecomorpha, Macroscelidea, Tubulidentata, Hyracoidea, Proboscidea, and Sirenia). The study corroborated recent findings that have identified a sister-group relationship between Anthropoidea and Dermoptera (flying lemurs), thereby making our own order, Primates, a paraphyletic assembly. Molecular estimates using paleontologically well-established calibration points, placed the origin of most eutherian orders in Cretaceous times, 70-100 million years before present (MYBP). The same estimates place all primate divergences much earlier than traditionally believed. For example, the divergence between Homo and Pan is estimated to have taken place approximately 10 MYBP, a dating consistent with recent findings in primate paleontology.

  12. Mitogenomic analyses of eutherian relationships.

    Science.gov (United States)

    Arnason, U; Janke, A

    2002-01-01

    Reasonably correct phylogenies are fundamental to the testing of evolutionary hypotheses. Here, we present phylogenetic findings based on analyses of 67 complete mammalian mitochondrial (mt) genomes. The analyses, irrespective of whether they were performed at the amino acid (aa) level or on nucleotides (nt) of first and second codon positions, placed Erinaceomorpha (hedgehogs and their kin) as the sister group of remaining eutherians. Thus, the analyses separated Erinaceomorpha from other traditional lipotyphlans (e.g., tenrecs, moles, and shrews), making traditional Lipotyphla polyphyletic. Both the aa and nt data sets identified the two order-rich eutherian clades, the Cetferungulata (comprising Pholidota, Carnivora, Perissodactyla, Artiodactyla, and Cetacea) and the African clade (Tenrecomorpha, Macroscelidea, Tubulidentata, Hyracoidea, Proboscidea, and Sirenia). The study corroborated recent findings that have identified a sister-group relationship between Anthropoidea and Dermoptera (flying lemurs), thereby making our own order, Primates, a paraphyletic assembly. Molecular estimates using paleontologically well-established calibration points, placed the origin of most eutherian orders in Cretaceous times, 70-100 million years before present (MYBP). The same estimates place all primate divergences much earlier than traditionally believed. For example, the divergence between Homo and Pan is estimated to have taken place approximately 10 MYBP, a dating consistent with recent findings in primate paleontology. PMID:12438776

  13. Analyses of a Virtual World

    CERN Document Server

    Holovatch, Yurij; Szell, Michael; Thurner, Stefan

    2016-01-01

    We present an overview of a series of results obtained from the analysis of human behavior in a virtual environment. We focus on the massive multiplayer online game (MMOG) Pardus which has a worldwide participant base of more than 400,000 registered players. We provide evidence for striking statistical similarities between social structures and human-action dynamics in the real and virtual worlds. In this sense MMOGs provide an extraordinary way for accurate and falsifiable studies of social phenomena. We further discuss possibilities to apply methods and concepts developed in the course of these studies to analyse oral and written narratives.

  14. THOR Turbulence Electron Analyser: TEA

    Science.gov (United States)

    Fazakerley, Andrew; Moore, Tom; Owen, Chris; Pollock, Craig; Wicks, Rob; Samara, Marilia; Rae, Jonny; Hancock, Barry; Kataria, Dhiren; Rust, Duncan

    2016-04-01

    Turbulence Heating ObserveR (THOR) is the first mission ever flown in space dedicated to plasma turbulence. The Turbulence Electron Analyser (TEA) will measure the plasma electron populations in the mission's Regions of Interest. It will collect a 3D electron velocity distribution with cadences as short as 5 ms. The instrument will be capable of measuring energies up to 30 keV. TEA consists of multiple electrostatic analyser heads arranged so as to measure electrons arriving from look directions covering the full sky, i.e. 4 pi solid angle. The baseline concept is similar to the successful FPI-DES instrument currently operating on the MMS mission. TEA is intended to have a similar angular resolution, but a larger geometric factor. In comparison to earlier missions, TEA improves on the measurement cadence. For example, MMS FPI-DES routinely operates at 30 ms cadence. The objective of measuring distributions at rates as fast as 5 ms is driven by the mission's scientific requirements to resolve electron gyroscale size structures, where plasma heating and fluctuation dissipation is predicted to occur. TEA will therefore be capable of making measurements of the evolution of distribution functions across thin (a few km) current sheets travelling past the spacecraft at up to 600 km/s, of the Power Spectral Density of fluctuations of electron moments and of distributions fast enough to match frequencies with waves expected to be dissipating turbulence (e.g. with 100 Hz whistler waves).

  15. Seismic Soil-Structure Interaction Analyses of a Deeply Embedded Model Reactor – SASSI Analyses

    Energy Technology Data Exchange (ETDEWEB)

    Nie J.; Braverman J.; Costantino, M.

    2013-10-31

    This report summarizes the SASSI analyses of a deeply embedded reactor model performed by BNL and CJC and Associates, as part of the seismic soil-structure interaction (SSI) simulation capability project for the NEAMS (Nuclear Energy Advanced Modeling and Simulation) Program of the Department of Energy. The SASSI analyses included three cases: 0.2 g, 0.5 g, and 0.9g, all of which refer to nominal peak accelerations at the top of the bedrock. The analyses utilized the modified subtraction method (MSM) for performing the seismic SSI evaluations. Each case consisted of two analyses: input motion in one horizontal direction (X) and input motion in the vertical direction (Z), both of which utilized the same in-column input motion. Besides providing SASSI results for use in comparison with the time domain SSI results obtained using the DIABLO computer code, this study also leads to the recognition that the frequency-domain method should be modernized so that it can better serve its mission-critical role for analysis and design of nuclear power plants.

  16. Analysing ESP Texts, but How?

    Directory of Open Access Journals (Sweden)

    Borza Natalia

    2015-03-01

    Full Text Available English as a second language (ESL teachers instructing general English and English for specific purposes (ESP in bilingual secondary schools face various challenges when it comes to choosing the main linguistic foci of language preparatory courses enabling non-native students to study academic subjects in English. ESL teachers intending to analyse English language subject textbooks written for secondary school students with the aim of gaining information about what bilingual secondary school students need to know in terms of language to process academic textbooks cannot avoiding deal with a dilemma. It needs to be decided which way it is most appropriate to analyse the texts in question. Handbooks of English applied linguistics are not immensely helpful with regard to this problem as they tend not to give recommendation as to which major text analytical approaches are advisable to follow in a pre-college setting. The present theoretical research aims to address this lacuna. Respectively, the purpose of this pedagogically motivated theoretical paper is to investigate two major approaches of ESP text analysis, the register and the genre analysis, in order to find the more suitable one for exploring the language use of secondary school subject texts from the point of view of an English as a second language teacher. Comparing and contrasting the merits and limitations of the two contrastive approaches allows for a better understanding of the nature of the two different perspectives of text analysis. The study examines the goals, the scope of analysis, and the achievements of the register perspective and those of the genre approach alike. The paper also investigates and reviews in detail the starkly different methods of ESP text analysis applied by the two perspectives. Discovering text analysis from a theoretical and methodological angle supports a practical aspect of English teaching, namely making an informed choice when setting out to analyse

  17. Analysing performance through value creation

    Directory of Open Access Journals (Sweden)

    Adrian TRIFAN

    2015-12-01

    Full Text Available This paper draws a parallel between measuring financial performance in 2 variants: the first one using data offered by accounting, which lays emphasis on maximizing profit, and the second one which aims to create value. The traditional approach to performance is based on some indicators from accounting data: ROI, ROE, EPS. The traditional management, based on analysing the data from accounting, has shown its limits, and a new approach is needed, based on creating value. The evaluation of value based performance tries to avoid the errors due to accounting data, by using other specific indicators: EVA, MVA, TSR, CVA. The main objective is shifted from maximizing the income to maximizing the value created for shareholders. The theoretical part is accompanied by a practical analysis regarding the creation of value and an analysis of the main indicators which evaluate this concept.

  18. Economical analyses in interventional radiology

    International Nuclear Information System (INIS)

    Considerations about the relation between benefit and expenses are also gaining increasing importance in interventional radiology. This review aims at providing a survey about the published data concerning economical analyses of some of the more frequently employed interventions in radiology excluding neuroradiological and coronary interventions. Because of the relative scarcity of literature in this field, all identified articles (n=46) were included without selection for methodological quality. For a number of radiological interventions the cost-effectiveness has already been demonstrated, e.g., PTA of femoropopliteal and iliac artery stenoses, stenting of renal artery stenoses, placement of vena-cava filters, as well as metal stents in malignant biliary and esophageal obstructions. Conflicting data exist for the treatment of abdominal aortic aneurysms. So far, no analysis could be found that directly compares bypass surgery versus PTA+stent in iliac arteries. (orig.)

  19. HGCal Simulation Analyses for CMS

    CERN Document Server

    Bruno, Sarah Marie

    2015-01-01

    This summer, I approached the topic of fast-timing detection of photons from Higgs decays via simulation analyses, working under the supervision of Dr. Adolf Bornheim of the California Institute of Technology. My specific project focused on simulating the high granularity calorimeter for the Compact Muon Solenoid (CMS) experiment. CMS detects particles using calorimeters. The Electromagnetic Calorimeter (ECal) is arranged cylindrically to form a barrel section and two “endcaps.” Previously, both the barrel and endcap have employed lead tungstate crystal detectors, known as the “shashlik” design. The crystal detectors, however, rapidly degrade from exposure to radiation. This effect is most pronounced in the endcaps. To avoid the high expense of frequently replacing degraded detectors, it was recently decided to eliminate the endcap crystals in favor of an arrangement of silicon detectors known as the “High Granularity Calorimeter” (HGCal), while leaving the barrel detector technology unchanged. T...

  20. Analyse des besoins des usagers

    OpenAIRE

    KHOUDOUR,L; LANGLAIS,A; Charpentier, C.; MOTTE,C; PIAN,C

    2002-01-01

    Il s'agit d'étendre la surveillance vidéo de l'enceinte du métro vers l'intérieur des rames. Les images captées constituent des prises de vue des événements qui se déroulent à l'intérieur des véhicules afin notamment d'améliorer la sécurité des usagers transportes. Il est possible de mémoriser les images des quelques instants précédant un incident usager, d'analyser ces images en temps différé et de mieux appréhender en temps réel le comportement des usagers face à des événements ou des consi...

  1. Uncertainty and Sensitivity Analyses Plan

    Energy Technology Data Exchange (ETDEWEB)

    Simpson, J.C.; Ramsdell, J.V. Jr.

    1993-04-01

    Hanford Environmental Dose Reconstruction (HEDR) Project staff are developing mathematical models to be used to estimate the radiation dose that individuals may have received as a result of emissions since 1944 from the US Department of Energy's (DOE) Hanford Site near Richland, Washington. An uncertainty and sensitivity analyses plan is essential to understand and interpret the predictions from these mathematical models. This is especially true in the case of the HEDR models where the values of many parameters are unknown. This plan gives a thorough documentation of the uncertainty and hierarchical sensitivity analysis methods recommended for use on all HEDR mathematical models. The documentation includes both technical definitions and examples. In addition, an extensive demonstration of the uncertainty and sensitivity analysis process is provided using actual results from the Hanford Environmental Dose Reconstruction Integrated Codes (HEDRIC). This demonstration shows how the approaches used in the recommended plan can be adapted for all dose predictions in the HEDR Project.

  2. Uncertainty and Sensitivity Analyses Plan

    International Nuclear Information System (INIS)

    Hanford Environmental Dose Reconstruction (HEDR) Project staff are developing mathematical models to be used to estimate the radiation dose that individuals may have received as a result of emissions since 1944 from the US Department of Energy's (DOE) Hanford Site near Richland, Washington. An uncertainty and sensitivity analyses plan is essential to understand and interpret the predictions from these mathematical models. This is especially true in the case of the HEDR models where the values of many parameters are unknown. This plan gives a thorough documentation of the uncertainty and hierarchical sensitivity analysis methods recommended for use on all HEDR mathematical models. The documentation includes both technical definitions and examples. In addition, an extensive demonstration of the uncertainty and sensitivity analysis process is provided using actual results from the Hanford Environmental Dose Reconstruction Integrated Codes (HEDRIC). This demonstration shows how the approaches used in the recommended plan can be adapted for all dose predictions in the HEDR Project

  3. Isotopic signatures by bulk analyses

    International Nuclear Information System (INIS)

    Los Alamos National Laboratory has developed a series of measurement techniques for identification of nuclear signatures by analyzing bulk samples. Two specific applications for isotopic fingerprinting to identify the origin of anthropogenic radioactivity in bulk samples are presented. The first example is the analyses of environmental samples collected in the US Arctic to determine the impact of dumping of radionuclides in this polar region. Analyses of sediment and biota samples indicate that for the areas sampled the anthropogenic radionuclide content of sediments was predominantly the result of the deposition of global fallout. The anthropogenic radionuclide concentrations in fish, birds and mammals were very low. It can be surmised that marine food chains are presently not significantly affected. The second example is isotopic fingerprinting of water and sediment samples from the Rocky Flats Facility (RFP). The largest source of anthropogenic radioactivity presently affecting surface-waters at RFP is the sediments that are currently residing in the holding ponds. One gram of sediment from a holding pond contains approximately 50 times more plutonium than 1 liter of water from the pond. Essentially 100% of the uranium in Ponds A-1 and A-2 originated as depleted uranium. The largest source of radioactivity in the terminal Ponds A-4, B-5 and C-2 was naturally occurring uranium and its decay product radium. The uranium concentrations in the waters collected from the terminal ponds contained 0.05% or less of the interim standard calculated derived concentration guide for uranium in waters available to the public. All of the radioactivity observed in soil, sediment and water samples collected at RFP was naturally occurring, the result of processes at RFP or the result of global fallout. No extraneous anthropogenic alpha, beta or gamma activities were detected. The plutonium concentrations in Pond C-2 appear to vary seasonally

  4. Learner as Statistical Units of Analyses

    Directory of Open Access Journals (Sweden)

    Vivek Venkatesh

    2011-01-01

    Full Text Available Educational psychologists have researched the generality and specificity of metacognitive monitoring in the context of college-level multiple-choice tests, but fairly little is known as to how learners monitor their performance on more complex academic tasks. Even lesser is known about how monitoring proficiencies such as discrimination and bias might be related to key self-regulatory processes associated with task understanding. This quantitative study explores the relationship between monitoring proficiencies and task understanding in 39 adult learners tackling ill-structured writing tasks for a graduate “theories of e-learning” course. Using learner as unit of analysis, the generality of monitoring is confirmed through intra-measure correlation analyses while facets of its specificity stand out due to the absence of inter-measure correlations. Unsurprisingly, learner-based correlational and repeated measures analyses did not reveal how monitoring proficiencies and task understanding might be related. However, using essay as unit of analysis, ordinal and multinomial regressions reveal how monitoring influences different levels of task understanding. Results are interpreted not only in light of novel procedures undertaken in calculating performance prediction capability but also in the application of essay-based, intra-sample statistical analysis that reveal heretofore unseen relationships between academic self-regulatory constructs.

  5. Analyses of containment structures with corrosion damage

    Energy Technology Data Exchange (ETDEWEB)

    Cherry, J.L. [Sandia National Labs., Albuquerque, NM (United States)

    1997-01-01

    Corrosion damage that has been found in a number of nuclear power plant containment structures can degrade the pressure capacity of the vessel. This has prompted concerns regarding the capacity of corroded containments to withstand accident loadings. To address these concerns, finite element analyses have been performed for a typical PWR Ice Condenser containment structure. Using ABAQUS, the pressure capacity was calculated for a typical vessel with no corrosion damage. Multiple analyses were then performed with the location of the corrosion and the amount of corrosion varied in each analysis. Using a strain-based failure criterion, a {open_quotes}lower bound{close_quotes}, {open_quotes}best estimate{close_quotes}, and {open_quotes}upper bound{close_quotes} failure level was predicted for each case. These limits were established by: determining the amount of variability that exists in material properties of typical containments, estimating the amount of uncertainty associated with the level of modeling detail and modeling assumptions, and estimating the effect of corrosion on the material properties.

  6. Analyses of containment structures with corrosion damage

    International Nuclear Information System (INIS)

    Corrosion damage that has been found in a number of nuclear power plant containment structures can degrade the pressure capacity of the vessel. This has prompted concerns regarding the capacity of corroded containments to withstand accident loadings. To address these concerns, finite element analyses have been performed for a typical PWR Ice Condenser containment structure. Using ABAQUS, the pressure capacity was calculated for a typical vessel with no corrosion damage. Multiple analyses were then performed with the location of the corrosion and the amount of corrosion varied in each analysis. Using a strain-based failure criterion, a open-quotes lower boundclose quotes, open-quotes best estimateclose quotes, and open-quotes upper boundclose quotes failure level was predicted for each case. These limits were established by: determining the amount of variability that exists in material properties of typical containments, estimating the amount of uncertainty associated with the level of modeling detail and modeling assumptions, and estimating the effect of corrosion on the material properties

  7. Automatic incrementalization of Prolog based static analyses

    DEFF Research Database (Denmark)

    Eichberg, Michael; Kahl, Matthias; Saha, Diptikalyan;

    2007-01-01

    Modem development environments integrate various static analyses into the build process. Analyses that analyze the whole project whenever the project changes are impractical in this context. We present an approach to automatic incrementalization of analyses that are specified as tabled logic...... incrementalizing a broad range of static analyses....

  8. Analysing degeneracies in networks spectra

    CERN Document Server

    Marrec, Loïc

    2016-01-01

    Many real-world networks exhibit a high degeneracy at few eigenvalues. We show that a simple transformation of the network's adjacency matrix provides an understanding of? the origins of occurrence of high multiplicities in the networks spectra. We find that the eigenvectors associated with the degenerate eigenvalues shed light on the structures contributing to the degeneracy. Since these degeneracies are rarely observed in model graphs, we present results for various cancer networks. This approach gives an opportunity to search for structures contributing to degeneracy which might have an important role in a network.

  9. Severe Accident Recriticality Analyses (SARA)

    Energy Technology Data Exchange (ETDEWEB)

    Frid, W. [Swedish Nuclear Power Inspectorate, Stockholm (Sweden); Hoejerup, F. [Risoe National Lab. (Denmark); Lindholm, I.; Miettinen, J.; Puska, E.K. [VTT Energy, Helsinki (Finland); Nilsson, Lars [Studsvik Eco and Safety AB, Nykoeping (Sweden); Sjoevall, H. [Teoliisuuden Voima Oy (Finland)

    1999-11-01

    Recriticality in a BWR has been studied for a total loss of electric power accident scenario. In a BWR, the B{sub 4}C control rods would melt and relocate from the core before the fuel during core uncovery and heat-up. If electric power returns during this time-window unborated water from ECCS systems will start to reflood the partly control rod free core. Recriticality might take place for which the only mitigating mechanisms are the Doppler effect and void formation. In order to assess the impact of recriticality on reactor safety, including accident management measures, the following issues have been investigated in the SARA project: 1. the energy deposition in the fuel during super-prompt power burst, 2. the quasi steady-state reactor power following the initial power burst and 3. containment response to elevated quasi steady-state reactor power. The approach was to use three computer codes and to further develop and adapt them for the task. The codes were SIMULATE-3K, APROS and RECRIT. Recriticality analyses were carried out for a number of selected reflooding transients for the Oskarshamn 3 plant in Sweden with SIMULATE-3K and for the Olkiluoto 1 plant in Finland with all three codes. The core state initial and boundary conditions prior to recriticality have been studied with the severe accident codes SCDAP/RELAP5, MELCOR and MAAP4. The results of the analyses show that all three codes predict recriticality - both superprompt power bursts and quasi steady-state power generation - for the studied range of parameters, i. e. with core uncovery and heat-up to maximum core temperatures around 1800 K and water flow rates of 45 kg/s to 2000 kg/s injected into the downcomer. Since the recriticality takes place in a small fraction of the core the power densities are high which results in large energy deposition in the fuel during power burst in some accident scenarios. The highest value, 418 cal/g, was obtained with SIMULATE-3K for an Oskarshamn 3 case with reflooding

  10. NOx analyser interefence from alkenes

    Science.gov (United States)

    Bloss, W. J.; Alam, M. S.; Lee, J. D.; Vazquez, M.; Munoz, A.; Rodenas, M.

    2012-04-01

    Nitrogen oxides (NO and NO2, collectively NOx) are critical intermediates in atmospheric chemistry. NOx abundance controls the levels of the primary atmospheric oxidants OH, NO3 and O3, and regulates the ozone production which results from the degradation of volatile organic compounds. NOx are also atmospheric pollutants in their own right, and NO2 is commonly included in air quality objectives and regulations. In addition to their role in controlling ozone formation, NOx levels affect the production of other pollutants such as the lachrymator PAN, and the nitrate component of secondary aerosol particles. Consequently, accurate measurement of nitrogen oxides in the atmosphere is of major importance for understanding our atmosphere. The most widely employed approach for the measurement of NOx is chemiluminescent detection of NO2* from the NO + O3 reaction, combined with NO2 reduction by either a heated catalyst or photoconvertor. The reaction between alkenes and ozone is also chemiluminescent; therefore alkenes may contribute to the measured NOx signal, depending upon the instrumental background subtraction cycle employed. This interference has been noted previously, and indeed the effect has been used to measure both alkenes and ozone in the atmosphere. Here we report the results of a systematic investigation of the response of a selection of NOx analysers, ranging from systems used for routine air quality monitoring to atmospheric research instrumentation, to a series of alkenes ranging from ethene to the biogenic monoterpenes, as a function of conditions (co-reactants, humidity). Experiments were performed in the European Photoreactor (EUPHORE) to ensure common calibration, a common sample for the monitors, and to unequivocally confirm the alkene (via FTIR) and NO2 (via DOAS) levels present. The instrument responses ranged from negligible levels up to 10 % depending upon the alkene present and conditions used. Such interferences may be of substantial importance

  11. The availability of toxicological analyses for poisoned patients in Ireland.

    LENUS (Irish Health Repository)

    Cassidy, Nicola

    2010-05-01

    The National Poisons Information Service and the Association of Clinical Biochemists in the United Kingdom published guidelines on laboratory analyses for poisoned patients in 2002. In 2003, U.S. guidelines were prepared by an expert panel of analytical toxicologists and emergency department (ED) physicians. Some professional associations in different countries quote these guidelines but there are no data to support adherence to these recommendations in the medical literature.

  12. On study design in neuroimaging heritability analyses

    Science.gov (United States)

    Koran, Mary Ellen; Li, Bo; Jahanshad, Neda; Thornton-Wells, Tricia A.; Glahn, David C.; Thompson, Paul M.; Blangero, John; Nichols, Thomas E.; Kochunov, Peter; Landman, Bennett A.

    2014-03-01

    Imaging genetics is an emerging methodology that combines genetic information with imaging-derived metrics to understand how genetic factors impact observable structural, functional, and quantitative phenotypes. Many of the most well-known genetic studies are based on Genome-Wide Association Studies (GWAS), which use large populations of related or unrelated individuals to associate traits and disorders with individual genetic factors. Merging imaging and genetics may potentially lead to improved power of association in GWAS because imaging traits may be more sensitive phenotypes, being closer to underlying genetic mechanisms, and their quantitative nature inherently increases power. We are developing SOLAR-ECLIPSE (SE) imaging genetics software which is capable of performing genetic analyses with both large-scale quantitative trait data and family structures of variable complexity. This program can estimate the contribution of genetic commonality among related subjects to a given phenotype, and essentially answer the question of whether or not the phenotype is heritable. This central factor of interest, heritability, offers bounds on the direct genetic influence over observed phenotypes. In order for a trait to be a good phenotype for GWAS, it must be heritable: at least some proportion of its variance must be due to genetic influences. A variety of family structures are commonly used for estimating heritability, yet the variability and biases for each as a function of the sample size are unknown. Herein, we investigate the ability of SOLAR to accurately estimate heritability models based on imaging data simulated using Monte Carlo methods implemented in R. We characterize the bias and the variability of heritability estimates from SOLAR as a function of sample size and pedigree structure (including twins, nuclear families, and nuclear families with grandparents).

  13. Bayesian inference analyses of the polygenic architecture of rheumatoid arthritis

    NARCIS (Netherlands)

    Stahl, Eli A.; Wegmann, Daniel; Trynka, Gosia; Gutierrez-Achury, Javier; Do, Ron; Voight, Benjamin F.; Kraft, Peter; Chen, Robert; Kallberg, Henrik J.; Kurreeman, Fina A. S.; Kathiresan, Sekar; Wijmenga, Cisca; Gregersen, Peter K.; Alfredsson, Lars; Siminovitch, Katherine A.; Worthington, Jane; de Bakker, Paul I. W.; Raychaudhuri, Soumya; Plenge, Robert M.

    2012-01-01

    The genetic architectures of common, complex diseases are largely uncharacterized. We modeled the genetic architecture underlying genome-wide association study (GWAS) data for rheumatoid arthritis and developed a new method using polygenic risk-score analyses to infer the total liability-scale varia

  14. Pawnee Nation Energy Option Analyses

    Energy Technology Data Exchange (ETDEWEB)

    Matlock, M.; Kersey, K.; Riding In, C.

    2009-07-21

    Pawnee Nation of Oklahoma Energy Option Analyses In 2003, the Pawnee Nation leadership identified the need for the tribe to comprehensively address its energy issues. During a strategic energy planning workshop a general framework was laid out and the Pawnee Nation Energy Task Force was created to work toward further development of the tribe’s energy vision. The overarching goals of the “first steps” project were to identify the most appropriate focus for its strategic energy initiatives going forward, and to provide information necessary to take the next steps in pursuit of the “best fit” energy options. Description of Activities Performed The research team reviewed existing data pertaining to the availability of biomass (focusing on woody biomass, agricultural biomass/bio-energy crops, and methane capture), solar, wind and hydropower resources on the Pawnee-owned lands. Using these data, combined with assumptions about costs and revenue streams, the research team performed preliminary feasibility assessments for each resource category. The research team also reviewed available funding resources and made recommendations to Pawnee Nation highlighting those resources with the greatest potential for financially-viable development, both in the near-term and over a longer time horizon. Findings and Recommendations Due to a lack of financial incentives for renewable energy, particularly at the state level, combined mediocre renewable energy resources, renewable energy development opportunities are limited for Pawnee Nation. However, near-term potential exists for development of solar hot water at the gym, and an exterior wood-fired boiler system at the tribe’s main administrative building. Pawnee Nation should also explore options for developing LFGTE resources in collaboration with the City of Pawnee. Significant potential may also exist for development of bio-energy resources within the next decade. Pawnee Nation representatives should closely monitor

  15. Fault zone damage, nonlinear site response, and dynamic triggering associated with seismic waves

    Science.gov (United States)

    Wu, Chunquan

    My dissertation focuses primarily on the following three aspects associated with passing seismic waves in the field of earthquake seismology: temporal changes of fault zone properties, nonlinear site response, and dynamic triggering. I systematically analyze temporal changes of fault zone (FZ) site response along the Karadere-Duzce branch of the North Anatolian fault that ruptured during the 1999 Izmit and Duzce earthquake sequences. These results provide a bridge between the large-amplitude near-instantaneous changes and the lower-amplitude longer-duration variations observed in previous studies. The temporal changes measured from this high-resolution spectral ratio analysis also provide a refinement for the beginning of the longer more gradual process typically observed by analyzing repeating earthquakes. I use the same sliding-window spectral ratio technique to analyze temporal changes in site response associated with the strong ground motion of the Mw6.6 2004 Mid-Niigata earthquake sequence recorded by the borehole stations in Japanese Digital Strong-Motion Seismograph Network (KiK-Net). The results suggest that at a given site the input ground motion plays an important role in controlling both the coseismic change and postseismic recovery in site response. In a follow-up study, I apply the same sliding-window spectral ratio technique to surface and borehole strong motion records at 6 KiK-Net sites, and stack results associated with different earthquakes that produce similar PGAs. In some cases I observe a weak coseismic drop in the peak frequency when the PGA is as small as ˜20--30 Gal, and near instantaneous recovery after the passage of the direct S waves. The percentage of drop in the peak frequency starts to increase with increasing PGA values. A coseismic drop in the peak spectral ratio is also observed at 2 sites. When the PGA is larger than ˜60 Gal to more than 100 Gal, considerably stronger coseismic drops of the peak frequencies are observed

  16. Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index

    NARCIS (Netherlands)

    E.K. Speliotes (Elizabeth); C.J. Willer (Cristen); S.I. Berndt (Sonja); K.L. Monda (Keri); G. Thorleifsson (Gudmar); A.U. Jackson (Anne); H.L. Allen; C.M. Lindgren (Cecilia); J. Luan; R. Mägi (Reedik); J.C. Randall (Joshua); S. Vedantam (Sailaja); T.W. Winkler (Thomas); L. Qi (Lu); T. Workalemahu (Tsegaselassie); I.M. Heid (Iris); V. Steinthorsdottir (Valgerdur); H.M. Stringham (Heather); E. Wheeler (Eleanor); A.R. Wood (Andrew); T. Ferreira (Teresa); R.J. Weyant (Robert); A.V. Segrè (Ayellet); K. Eestrada (Karol); L. Liang (Liming); J. Nemesh (James); J.H. Park; S. Gustafsson (Stefan); T.O. Kilpeläinen (Tuomas); J. Yang (Joanna); N. Bouatia-Naji (Nabila); T. Eesko (Tõnu); M.F. Feitosa (Mary Furlan); Z. Kutalik (Zoltán); M. Mangino (Massimo); S. Raychaudhuri (Soumya); A. Scherag (Andre); A.V. Smith (Albert Vernon); R.P. Welch (Ryan); J.H. Zhao; K.K.H. Aben (Katja); D. Absher (Devin); N. Amin (Najaf); A.L. Dixon (Anna); E. Fisher (Eeva); N.L. Glazer (Nicole); M.E. Goddard (Michael); N.L. Heard-Costa (Nancy); V. Hoesel (Volker); J.J. Hottenga (Jouke Jan); A. Johansson (Åsa); T. Johnson (Toby); S. Ketkar (Shamika); C. Lamina (Claudia); S. Li (Shengxu); M.F. Moffatt (Miriam); R.H. Myers (Richard); N. Narisu (Narisu); J.R.B. Perry (John); M.J. Peters (Marjolein); M. Preuss (Michael); S. Ripatti (Samuli); F. Rivadeneira Ramirez (Fernando); C. Sandholt (Camilla); L.J. Scott (Laura); N. Timpson (Nicholas); J.P. Tyrer (Jonathan); S. van Wingerden (Sophie); C.C. White (Charles); F. Wiklund (Fredrik); C. Barlassina (Christina); D.I. Chasman (Daniel); M.N. Cooper (Matthew); J.O. Jansson; R.W. Lawrence (Robert); N. Pellikka (Niina); I. Prokopenko (Inga); J. Shi (Jianxin); E. Thiering (Eelisabeth); H. Alavere (Helene); M.T.S. Alibrandi (Maria); P. Almgren (Peter); A.M. Arnold (Alice); T. Aspelund (Thor); L.D. Atwood (Larry); B. Balkau (Beverley); A.J. Balmforth (Anthony); A.J. Bennett (Amanda); Y. Ben-Shlomo; R.N. Bergman (Richard); S.M. Bergmann (Sven); H. Biebermann (Heike); A.I.F. Blakemore (Alexandra); T. Boes (Tanja); L.L. Bonnycastle (Lori); S.R. Bornstein (Stefan); M.J. Brown (Morris); T.A. Buchanan (Thomas); F. Busonero; H. Campbell (Harry); F.P. Cappuccio (Francesco); C. Cavalcanti-Proença (Christine); Y.D.I. Chen (Yii-Der Ida); C.-M. Chen (Chih-Mei); P.S. Chines (Peter); R. Clarke; L. Coin (Lachlan); J. Connell (John); I.N.M. Day (Ian); M. den Heijer (Martin); J. Duan (Jubao); S. Eebrahim (Shah); P. Eelliott (Paul); R. Eelosua (Roberto); G. Eeiriksdottir (Gudny); M.R. Eerdos (Micheal); J.G. Eeriksson (Johan); M.F. Facheris (Maurizio); S.B. Felix (Stephan); P. Fischer-Posovszky (Pamela); A.R. Folsom (Aaron); N. Friedrich (Nele); N.B. Freimer (Nelson); M. Fu (Mao); S. Gaget (Stefan); P.V. Gejman (Pablo); E.J. Geus (Eeco); C. Gieger (Christian); A.P. Gjesing (Anette); A. Goel (Anuj); P. Goyette (Philippe); H. Grallert (Harald); J. Gräßler (Jürgen); D. Greenawalt (Danielle); C.J. Groves (Christopher); V. Gudnason (Vilmundur); C. Guiducci (Candace); A.L. Hartikainen; N. Hassanali (Neelam); A.S. Hall (Alistair); A.S. Havulinna (Aki); C. Hayward (Caroline); A.C. Heath (Andrew); C. Hengstenberg (Christian); A.A. Hicks (Andrew); A. Hinney (Anke); A. Hofman (Albert); G. Homuth (Georg); J. Hui (Jennie); W. Igl (Wilmar); C. Iribarren (Carlos); B. Isomaa (Bo); K.B. Jacobs (Kevin); I. Jarick (Ivonne); E. Jewell (Eelizabeth); U. John (Ulrich); T. Jørgensen (Torben); P. Jousilahti (Pekka); A. Jula (Antti); M. Kaakinen (Marika); E. Kajantie (Eero); R.C. Kaplan (Robert); S. Kathiresan (Sekar); J. Kettunen (Johannes); L. Kinnunen (Leena); J.W. Knowles (Joshua); I. Kolcic (Ivana); I.R. König (Inke); S. Koskinen (Seppo); P. Kovacs (Peter); J. Kusisto (Johanna); P. Kraft (Peter); K. Kvaløy (Kirsti); J. Laitinen (Jaana); O. Lantieri (Olivier); C. Lanzani (Chiara); L.J. Launer (Lenore); C. Lecoeur (Cécile); T. Lehtimäki (Terho); G. Lettre (Guillaume); J. Liu (Jianjun); M.L. Lokki; M. Lorentzon (Mattias); R.N. Luben (Robert); B. Ludwig (Barbara); P. Manunta (Paolo); D. Marek (Diana); M. Marre (Michel); N.G. Martin (Nicholas); W.L. McArdle (Wendy); M.I. McCarthy (Mark); B. McKnight (Barbara); T. Meitinger (Thomas); O. Melander (Olle); D. Meyre (David); K. Midthjell (Kristian); G.W. Montgomery (Grant); M.A. Morken (Mario); A.D. Morris (Andrew); R. Mulic (Rosanda); J.S. Ngwa; M. Nelis (Mari); M.J. Neville (Matthew); D.R. Nyholt (Dale); C.J. O'Ddonnell (Christopher); S. O'Rahilly (Stephen); K. Ong (Ken); B.A. Oostra (Ben); G. Paré (Guillaume); A.N. Parker (Alex); M. Perola (Markus); I. Pichler (Irene); K.H. Pietilainen (Kirsi Hannele); C.P. Platou (Carl); O. Polasek (Ozren); A. Pouta (Anneli); S. Rafelt (Suzanne); O. Raitakari (Olli); N.W. Rayner (Nigel William); M. Ridderstråle (Martin); W. Rief (Winfried); A. Ruokonen (Aimo); N.R. Robertson (Neil); P. Rzehak (Peter); V. Salomaa (Veikko); A.R. Sanders (Alan); M.S. Sandhu (Manjinder); S. Sanna (Serena); J. Saramies (Jouko); M.J. Savolainen (Markku); S. Schipf (Sabine); S. Schreiber (Stefan); H. Schunkert (Heribert); K. Silander (Kaisa); J. Sinisalo (Juha); D.S. Siscovick (David); J.H. Smit (Jan); N. Soranzo (Nicole); U. Sovio (Ulla); J. Stephens (Jonathan); I. Surakka (Ida); A.J. Swift (Amy); M.L. Tammesoo; J.-C. Tardif (Jean-Claude); M. Teder-Laving (Maris); T.M. Teslovich (Tanya); J.R. Thompson (John); B. Thomson (Brian); A. Tönjes (Anke); T. Tuomi (Tiinamaija); J.B.J. van Meurs (Joyce); G.J. van OMen; V. Vatin (Vincent); J. Viikari (Jorma); S. Visvikis-Siest (Sophie); V. Vitart (Veronique); C.I. Vogel (Carla); B.F. Voight (Benjamin); L. Waite (Lindsay); H. Wallaschofski (Henri); G.B. Walters (Bragi); E. Widen (Elisabeth); S. Wiegand (Susanna); S.H. Wild (Sarah); G.A.H.M. Willemsen (Gonneke); D.R. Witte (Deniel); J.C.M. Witteman (Jacqueline); J. Xu (Jianfeng); Q. Zhang (Qunyuan); L. Zgaga (Lina); A. Ziegler (Andreas); P. Zitting (Paavo); J.P. Beilby (John); I.S. FarOqi (Ssadaf); J. Hebebrand (Johannes); H.V. Huikuri (Heikki); A. James (Alan); M. Kähönen (Mika); D.F. Levinson (Douglas); F. MacCiardi (Fabio); M.S. Nieminen (Markku); C. Ohlsson (Claes); C. Palmer (Cameron); P.M. Ridker (Paul); M. Stumvoll (Michael); J.S. Beckmann (Jacques); H. Boeing (Heiner); E.A. Boerwinkle (Eric); D.I. Boomsma (Dorret); M. Caulfield (Mark); S.J. Chanock (Stephen); F.S. Collins (Francis); L.A. Cupples (Adrienne); J. Eerdmann (Jeanette); P. Frogue (Philippe); H. Grönberg (Henrik); U. Gyllensten (Ulf); T. Hansen (Torben); T.B. Harris (Tamara); A.T. Hattersley (Andrew); R.B. Hayes (Richard); J. Heinrich (Joachim); F.B. Hu (Frank); K. Hveem (Kristian); T. Illig (Thomas); M.R. Järvelin; J. Kaprio (Jaakko); F. Karpe (Fredrik); K-T. Khaw (Kay-Tee); L.A.L.M. Kiemeney (Bart); H. Krude; M. Laakso (Markku); D.A. Lawlor (Debbie); A. Metspalu (Andres); P. Munroe (Patricia); W.H. Ouwehand (Willem); O. Pedersen (Oluf); B.W.J.H. Penninx (Brenda); P.P. Pramstaller (Peter Paul); T. Quertermous (Thomas); T. Reinehr (Thomas); A. Rissanen (Aila); I. Rudan (Igor); N.J. Samani (Nilesh); P.E.H. Schwarz (Peter); A.R. Shuldiner (Alan); T.D. Spector (Timothy); J. Tuomilehto (Jaakko); M. Uda (Manuela); A.G. Uitterlinden (André); T.T. Valle (Timo); M. Wabitsch (Martin); G. Waeber (Gérard); N.J. Wareham (Nick); H. Watkins (Hugh); J.F. Wilson (James); A.F. Wright (Alan); M.C. Zillikens (Carola); N. ChatterjE (Nilanjan); S.A. McCarroll (Steve); S. Purcell (Shaun); E.E. Schadt (Eric); P.M. Visscher (Peter); T.L. Assimes (Themistocles); I.B. Borecki (Ingrid); P. Deloukas (Panagiotis); C.S. Fox (Caroline); L. Groop (Leif); T. Haritunians (Talin); D.J. Hunter (David); K.L. Mohlke (Karen); J.R. O'ConneL (Jeffrey); L. Peltonen (Leena Johanna); D. SchleSinger (David); D.P. Strachan (David); R.M. Watanabe (Richard); C.M. van Duijn (Cock); H.E. Wichmann (Heinz Erich); T.M. Frayling (Timothy); U. Thorsteinsdottir (Unnur); G.R. Abecasis (Gonçalo); M. Boehnke (Michael); K. StefanSon (Kari); K.E. North (Kari); M.I. McArthy (Mark); J.N. Hirschhorn (Joel); E. IngelSon (Erik); R.J.F. Loos (Ruth); M.N. Weedon (Michael)

    2010-01-01

    textabstractObesity is globaLy prevalent and highly heritable, but its underlying genetic factors remain largely elusive. To identify genetic loci for obesity susceptibility, we examined aSociations betwEn body maS index and ĝ̂1/42.8 miLion SNPs in up to 123,865 individuals with targeted foLow up of

  17. The geometric increase in meta-analyses from China in the genomic era.

    Directory of Open Access Journals (Sweden)

    John P A Ioannidis

    Full Text Available Meta-analyses are increasingly popular. It is unknown whether this popularity is driven by specific countries and specific meta-analyses types. PubMed was used to identify meta-analyses since 1995 (last update 9/1/2012 and catalogue their types and country of origin. We focused more on meta-analyses from China (the current top producer of meta-analyses versus the USA (top producer until recently. The annual number of meta-analyses from China increased 40-fold between 2003 and 2011 versus 2.4-fold for the USA. The growth of Chinese meta-analyses was driven by genetics (110-fold increase in 2011 versus 2003. The HuGE Navigator identified 612 meta-analyses of genetic association studies published in 2012 from China versus only 109 from the USA. We compared in-depth 50 genetic association meta-analyses from China versus 50 from USA in 2012. Meta-analyses from China almost always used only literature-based data (92%, and focused on one or two genes (94% and variants (78% identified with candidate gene approaches (88%, while many USA meta-analyses used genome-wide approaches and raw data. Both groups usually concluded favorably for the presence of genetic associations (80% versus 74%, but nominal significance (P<0.05 typically sufficed in the China group. Meta-analyses from China typically neglected genome-wide data, and often included candidate gene studies published in Chinese-language journals. Overall, there is an impressive rise of meta-analyses from China, particularly on genetic associations. Since most claimed candidate gene associations are likely false-positives, there is an urgent global need to incorporate genome-wide data and state-of-the art statistical inferences to avoid a flood of false-positive genetic meta-analyses.

  18. The geometric increase in meta-analyses from China in the genomic era.

    Science.gov (United States)

    Ioannidis, John P A; Chang, Christine Q; Lam, Tram Kim; Schully, Sheri D; Khoury, Muin J

    2013-01-01

    Meta-analyses are increasingly popular. It is unknown whether this popularity is driven by specific countries and specific meta-analyses types. PubMed was used to identify meta-analyses since 1995 (last update 9/1/2012) and catalogue their types and country of origin. We focused more on meta-analyses from China (the current top producer of meta-analyses) versus the USA (top producer until recently). The annual number of meta-analyses from China increased 40-fold between 2003 and 2011 versus 2.4-fold for the USA. The growth of Chinese meta-analyses was driven by genetics (110-fold increase in 2011 versus 2003). The HuGE Navigator identified 612 meta-analyses of genetic association studies published in 2012 from China versus only 109 from the USA. We compared in-depth 50 genetic association meta-analyses from China versus 50 from USA in 2012. Meta-analyses from China almost always used only literature-based data (92%), and focused on one or two genes (94%) and variants (78%) identified with candidate gene approaches (88%), while many USA meta-analyses used genome-wide approaches and raw data. Both groups usually concluded favorably for the presence of genetic associations (80% versus 74%), but nominal significance (PChina group. Meta-analyses from China typically neglected genome-wide data, and often included candidate gene studies published in Chinese-language journals. Overall, there is an impressive rise of meta-analyses from China, particularly on genetic associations. Since most claimed candidate gene associations are likely false-positives, there is an urgent global need to incorporate genome-wide data and state-of-the art statistical inferences to avoid a flood of false-positive genetic meta-analyses.

  19. Economische analyse van de Nederlandse biotechnologiesector

    OpenAIRE

    Giessen, A.M. van der; Gijsbers, G.W.; Koops, R.; Zee, F.A. van der

    2014-01-01

    In opdracht van de Commissie Genetische Modificatie (COGEM) heeft TNO een deskstudie uitgevoerd getiteld “Economische analyse van de Nederlandse biotechnologiesector”. Deze analyse is één van de voorstudies die de COGEM laat uitvoeren als voorbereiding op de Trendanalyse Biotechnologie, die naar verwachting in 2015 zal worden uitgevoerd. Voor deze analyse heeft de COGEM aan TNO gevraagd ontwikkelingen, trends en kansen van de biotechnologie opnieuw in kaart te brengen, met een nadruk op econo...

  20. [Anne Arold. Kontrastive Analyse...] / Paul Alvre

    Index Scriptorium Estoniae

    Alvre, Paul, 1921-2008

    2001-01-01

    Arvustus: Arold, Anne. Kontrastive analyse der Wortbildungsmuster im Deutschen und im Estnischen (am Beispiel der Aussehensadjektive). Tartu, 2000. (Dissertationes philologiae germanicae Universitatis Tartuensis)

  1. Economische analyse van de Nederlandse biotechnologiesector

    NARCIS (Netherlands)

    Giessen, A.M. van der; Gijsbers, G.W.; Koops, R.; Zee, F.A. van der

    2014-01-01

    In opdracht van de Commissie Genetische Modificatie (COGEM) heeft TNO een deskstudie uitgevoerd getiteld “Economische analyse van de Nederlandse biotechnologiesector”. Deze analyse is één van de voorstudies die de COGEM laat uitvoeren als voorbereiding op de Trendanalyse Biotechnologie, die naar ver

  2. New environmental metabarcodes for analysing soil DNA

    DEFF Research Database (Denmark)

    Epp, Laura S.; Boessenkool, Sanne; Bellemain, Eva P.;

    2012-01-01

    Metabarcoding approaches use total and typically degraded DNA from environmental samples to analyse biotic assemblages and can potentially be carried out for any kinds of organisms in an ecosystem. These analyses rely on specific markers, here called metabarcodes, which should be optimized for ta....... The metabarcoding approach has considerable potential for biodiversity screening of modern samples and also as a palaeoecological tool....

  3. Novel Algorithms for Astronomical Plate Analyses

    Indian Academy of Sciences (India)

    Rene Hudec; Lukas Hudec

    2011-03-01

    Powerful computers and dedicated software allow effective data mining and scientific analyses in astronomical plate archives. We give and discuss examples of newly developed algorithms for astronomical plate analyses, e.g., searches for optical transients, as well as for major spectral and brightness changes.

  4. Cost-Benefit Analyses of Transportation Investments

    DEFF Research Database (Denmark)

    Næss, Petter

    2006-01-01

    This paper discusses the practice of cost-benefit analyses of transportation infrastructure investment projects from the meta-theoretical perspective of critical realism. Such analyses are based on a number of untenable ontological assumptions about social value, human nature and the natural......-to-pay investigations. Accepting the ontological and epistemological assumptions of cost-benefit analysis involves an implicit acceptance of the ethical and political values favoured by these assumptions. Cost-benefit analyses of transportation investment projects tend to neglect long-term environmental consequences...... and needs among population groups with a low ability to pay. Instead of cost-benefit analyses, impact analyses evaluating the likely effects of project alternatives against a wide range of societal goals is recommended, with quantification and economic valorisation only for impact categories where this can...

  5. High perfomance liquid chromatography in pharmaceutical analyses.

    Science.gov (United States)

    Nikolin, Branko; Imamović, Belma; Medanhodzić-Vuk, Saira; Sober, Miroslav

    2004-05-01

    electrochemical detection is nearly always associated with a major frontal peak than tails considerably. To date, the most sensitive method has been the reductive electrochemical detection and giving the excellent results in the investigation on some classes of drugs. Several high performance liquid chromatography oxidative electrochemical methods have been developed for the analyses of drugs and metabolites in body fluids. Mass spectrometer as specific detector with all variation of ionisation and interface (thermo spray, moving belt etc. ) or liquid chromatography-tandem mass spectrometry2,3,4,5). NMR as selective and specific detector in high performance liquid chromatography today is also in used. The development of a non-aqueous eluent for ion-exchange separation on silica has provided an excellent system which, when used in conjugation with an electrochemical detector, permits the analyses of an extensive range of especially basic drugs and metabolites. New packing materials such as polymeric, base deactivated silica's, pyrolysed carbon and the internal surface packing should offer the improved stability and higher efficiencies for certain classes of the compounds such as basic drugs. Microbore columns should become more accepted since they offer not only improved sensitivity but also a lower solvent consumption and consequently the reduced needs to dispose of noxious solvents. Many analyses of basic drugs are still performed by the same method of the ion-exchange chromatography on unmodified silica columns with an eluent buffered to about pH 9. Neutral or weakly acidic drugs for instance barbiturates can be chromatographed on a reversed phase system whilst acidic drugs for example paracetamol, cannabis are separated either by ion suppression or ion-pair chromatography on a reversed-phase packing material. In micelar liquid chromatography micelar mobile phases in reversed-phase instead of conventional hydro organic mobile phase is used. In micelar liquid chromatography

  6. 苏太猪宰后72hpH和肉色性状的全基因组关联分析%Genome-Wide Association Analyses for Musle pH 72 h Value and Meat Color Traits in Sutai Pigs

    Institute of Scientific and Technical Information of China (English)

    周李生; 杨杰; 刘先先; 张志燕; 杨斌; 麻骏武

    2014-01-01

    [Objective] The objective of this study is to identify candidate genes and molecular markers associated with meat quality traits of Sutai pigs. [Method] Genome-wide association analysis was conducted by using Illumina 60K SNP Bead-chip genotypes of 150 Sutai pigs. Phenotypic data of each animal included postmortem 72 h muscle pH(pH 72 h), pH drop from postmortem 45 min to 72 h (pHdrop_45 min_72 h), 72 h Minolta a, b, L (ColorM_a72 h, ColorM_b72 h, ColorM_L72 h) and subjective color score (ColorScore_72 h) of longissimus dorsi (LM) and semimembranosus (SM) muscle. Quality control was carried out using PLINK v1.07. SNP markers were removed if they had genotype-missing rates>0.03 or minor allele frequencies (MAF)<0.05 or Hardy-Weinherg P≤10-5. Samples were removed on low (<90%) call rate. After the quality control, all 150 samples passed the filter and a final set of 43 760 SNPs were selected for GWAS. The association analyses were conducted using GenABEL in the R software. SNPs were individually tested for association with all studied traits using a generalized linear mixed model and the genome-wide significance threshold was determined by the Bonferroni method. The influence of population stratification was assessed by examining the distribution of test statistics generated from the thousands of association tests and assessing their deviation from the null distribution in a quantile-quantile (Q-Q) plot. [Result] The relationship between LM_pH72 h and SM_pH72 h, between LM_pHdrop_45 min_72 h and SM_pHdrop_45 min_72 h, between LM_ColorM_b72 h and SM_ColorM_b72 h, between LM_ColorM_L72 h and LM_ColorScore_72 h and between SM_ColorM_L72 h and SM_ColorScore_72 h were significant (P <0.05). There was no clear overall systematic bias in all studied traits and no very strong stratification existed. In total, 39 SNPs reached Bonferroni chromosome-wise significance and fell into 20 genomic regions of approximately 10 Mb or less. Among them, 17 SNPs significantly associated

  7. The psychological status of phonological analyses

    Directory of Open Access Journals (Sweden)

    David Eddington

    2015-09-01

    Full Text Available This paper casts doubt on the psychological relevance of many phonological analyses. There are four reasons for this: 1 theoretical adequacy does not necessarily imply psychological significance; 2 most approaches are nonempirical in that they are not subject to potential spatiotemporal falsification; 3 phonological analyses are estab­ lished with little or no recourse to the speakers of the language via experimental psy­ chology; 4 the limited base of evidence which most analyses are founded on is further cause for skepticism.

  8. L’Analyse de discours des Sociologues

    OpenAIRE

    Demailly, Lise

    2013-01-01

    Les sociologues utilisent, comme méthode d'analyse, l'analyse de discours. Des recherches, ici exposées, ont été menées sur cette méthode, ses spécificités et ses apports à la formation aux techniques d'expression (T.E.). Il ressort que le sociologue produit d'abord des discours (par l'entretien et l'observation) puis les analyse, les traite. Ces discours sont difficilement utilisables en T.E. tant ils sont saturés d'enjeux théoriques voire idéologiques.

  9. Anthocyanin analyses of Vaccinium fruit dietary supplements

    Science.gov (United States)

    Vaccinium fruit ingredients within dietary supplements were identified by comparisons with anthocyanin analyses of known Vaccinium profiles (demonstration of anthocyanin fingerprinting). Available Vaccinium supplements were purchased and analyzed; their anthocyanin profiles (based on HPLC separation...

  10. 49 CFR 1180.7 - Market analyses.

    Science.gov (United States)

    2010-10-01

    ... OF TRANSPORTATION RULES OF PRACTICE RAILROAD ACQUISITION, CONTROL, MERGER, CONSOLIDATION PROJECT, TRACKAGE RIGHTS, AND LEASE PROCEDURES General Acquisition Procedures § 1180.7 Market analyses. (a) For... company's marketing plan and existing and potential competitive alternatives (inter- as well as...

  11. Understanding Human Error Based on Automated Analyses

    Data.gov (United States)

    National Aeronautics and Space Administration — This is a report on a continuing study of automated analyses of experiential textual reports to gain insight into the causal factors of human errors in aviation...

  12. Random error in cardiovascular meta-analyses

    DEFF Research Database (Denmark)

    Albalawi, Zaina; McAlister, Finlay A; Thorlund, Kristian;

    2013-01-01

    BACKGROUND: Cochrane reviews are viewed as the gold standard in meta-analyses given their efforts to identify and limit systematic error which could cause spurious conclusions. The potential for random error to cause spurious conclusions in meta-analyses is less well appreciated. METHODS: We...... examined all reviews approved and published by the Cochrane Heart Group in the 2012 Cochrane Library that included at least one meta-analysis with 5 or more randomized trials. We used trial sequential analysis to classify statistically significant meta-analyses as true positives if their pooled sample size...... and/or their cumulative Z-curve crossed the O'Brien-Fleming monitoring boundaries for detecting a RRR of at least 25%. We classified meta-analyses that did not achieve statistical significance as true negatives if their pooled sample size was sufficient to reject a RRR of 25%. RESULTS: Twenty three...

  13. A History of Rotorcraft Comprehensive Analyses

    Science.gov (United States)

    Johnson, Wayne

    2013-01-01

    A history of the development of rotorcraft comprehensive analyses is presented. Comprehensive analyses are digital computer programs that calculate the aeromechanical behavior of the rotor and aircraft, bringing together the most advanced models of the geometry, structure, dynamics, and aerodynamics available in rotary wing technology. The development of the major codes of the last five decades from industry, government, and universities is described. A number of common themes observed in this history are discussed.

  14. Thermal Analyse sof Cross-Linked Polyethylene

    Directory of Open Access Journals (Sweden)

    Radek Polansky

    2007-01-01

    Full Text Available The paper summarizes results obtained during the structural analyses measurements (Differential Scanning Calorimetry DSC, Thermogravimetry TG, Thermomechanical analysis TMA and Fourier transform infrared spectroscopy FT-IR. The samples of cross-linked polyethylene cable insulation were tested via these analyses. The DSC and TG were carried out using simultaneous thermal analyzer TA Instruments SDT Q600 with connection of Fourier transform infrared spectrometer Nicolet 380. Thermomechanical analysis was carried out by TMA Q400EM TA Instruments apparatus.

  15. Fractal Analyses of High-Resolution Cloud Droplet Measurements.

    Science.gov (United States)

    Malinowski, Szymon P.; Leclerc, Monique Y.; Baumgardner, Darrel G.

    1994-02-01

    Fractal analyses of individual cloud droplet distributions using aircraft measurements along one-dimensional horizontal cross sections through clouds are performed. Box counting and cluster analyses are used to determine spatial scales of inhomogeneity of cloud droplet spacing. These analyses reveal that droplet spatial distributions do not exhibit a fractal behavior. A high variability in local droplet concentration in cloud volumes undergoing mixing was found. In these regions, thin filaments of cloudy air with droplet concentration close to those observed in cloud cores were found. Results suggest that these filaments may be anisotropic. Additional box counting analyses performed for various classes of cloud droplet diameters indicate that large and small droplets are similarly distributed, except for the larger characteristic spacing of large droplets.A cloud-clear air interface defined by a certain threshold of total droplet count (TDC) was investigated. There are indications that this interface is a convoluted surface of a fractal nature, at least in actively developing cumuliform clouds. In contrast, TDC in the cloud interior does not have fractal or multifractal properties. Finally a random Cantor set (RCS) was introduced as a model of a fractal process with an ill-defined internal scale. A uniform measure associated with the RCS after several generations was introduced to simulate the TDC records. Comparison of the model with real TDC records indicates similar properties of both types of data series.

  16. Finite element analyses of CCAT preliminary design

    Science.gov (United States)

    Sarawit, Andrew T.; Kan, Frank W.

    2014-07-01

    This paper describes the development of the CCAT telescope finite element model (FEM) and the analyses performed to support the preliminary design work. CCAT will be a 25 m diameter telescope operating in the 0.2 to 2 mm wavelength range. It will be located at an elevation of 5600 m on Cerro Chajnantor in Northern Chile, near ALMA. The telescope will be equipped with wide-field cameras and spectrometers mounted at the two Nasmyth foci. The telescope will be inside an enclosure to protect it from wind buffeting, direct solar heating, and bad weather. The main structures of the telescope include a steel Mount and a carbon-fiber-reinforced-plastic (CFRP) primary truss. The finite element model developed in this study was used to perform modal, frequency response, seismic response spectrum, stress, and deflection analyses of telescope. Modal analyses of telescope were performed to compute the structure natural frequencies and mode shapes and to obtain reduced order modal output at selected locations in the telescope structure to support the design of the Mount control system. Modal frequency response analyses were also performed to compute transfer functions at these selected locations. Seismic response spectrum analyses of the telescope subject to the Maximum Likely Earthquake were performed to compute peak accelerations and seismic demand stresses. Stress analyses were performed for gravity load to obtain gravity demand stresses. Deflection analyses for gravity load, thermal load, and differential elevation drive torque were performed so that the CCAT Observatory can verify that the structures meet the stringent telescope surface and pointing error requirements.

  17. Diversity of Genetic Resources and Genetic Association Analyses of Green and Dry Chillies of Eastern India Diversidad de Recursos Genéticos y Análisis de Asociación Genética de Ajíes Verdes y Secos del Este de India

    Directory of Open Access Journals (Sweden)

    Arup Chattopadhyay

    2011-09-01

    Full Text Available Chilli (Capsicum annuum L. is regarded as one of the main commercial vegetable and spice crops at the global level. Maximum diversity can be noted among the cultivars/landraces available in India with respect to shape, size, yield, quality, and other traits. The present experiment was conducted to identify the most promising chilli variety suited for green and dry purposes, to study the genetic variability for different traits and to assess the association of different yield attributing traits with the green and dry yield of chilli. Thirty four genotypes were characterized during a 2-yr period. Most of the genotypes possessed the character constellation of C. annuum. Two genotypes, ‘Chaitali Pointed’ and ‘BC CH Sel-4’ were found most promising with respect to green fruit yield (272.79 g, 221.10 g per plant and dry fruit yield (54.56 g, 44.44 g per plant. Phenotypic and Genotypic Coefficient of Variation values for green fruit weight (119.95%, 111.26%, green fruit girth (89.76%, 48.93%, weight of red ripe fruit (112.02%, 111.93%, weight of dry fruit (111.63%, 110.97% and number of fruits per plant (86.05%, 85.02% were recorded to be high. Green fruit yield per plant, ascorbic acid content, and number of fruits per plant also showed very high broad-sense heritability and genetic advance. From the study of correlation and path coefficient analyses, the number of fruits per plant, green fruit length for green chilli, weight of dry fruit and the number of fruits per plant for dry chilli were found to the most important selection indices.El ají (Capsicum annuum L. es considerado como uno de los principales cultivos comerciales de vegetales y especias a nivel mundial. La máxima diversidad puede ser observada entre los cultivares y razas disponibles en India con respecto a forma, tamaño, producción, calidad, y otros rasgos. Este experimento se realizó para identificar la variedad de ají más promisoria y apropiada para fruto verde y seco

  18. Systematic Review of Health Economic Analyses of Measles and Rubella Immunization Interventions.

    Science.gov (United States)

    Thompson, Kimberly M; Odahowski, Cassie L

    2016-07-01

    Economic analyses for vaccine-preventable diseases provide important insights about the value of prevention. We reviewed the literature to identify all of the peer-reviewed, published economic analyses of interventions related to measles and rubella immunization options to assess the different types of analyses performed and characterize key insights. We searched PubMed, the Science Citation Index, and references from relevant articles for studies in English and found 67 analyses that reported primary data and quantitative estimates of benefit-cost or cost-effectiveness analyses for measles and/or rubella immunization interventions. We removed studies that we characterized as cost-minimization analyses from this sample because they generally provide insights that focused on more optimal strategies to achieve the same health outcome. The 67 analyses we included demonstrate the large economic benefits associated with preventing measles and rubella infections using vaccines and the benefit of combining measles and rubella antigens into a formulation that saves the costs associated with injecting the vaccines separately. Despite the importance of population immunity and dynamic viral transmission, most of the analyses used static models to estimate cases prevented and characterize benefits, although the use of dynamic models continues to increase. Many of the analyses focused on characterizing the most significant adverse outcomes (e.g., mortality for measles, congenital rubella syndrome for rubella) and/or only direct costs, and the most complete analyses present data from high-income countries. PMID:25545778

  19. Relative influences of establishing operations and reinforcement contingencies on self-injurious behavior during functional analyses.

    OpenAIRE

    Worsdell, A S; Iwata, B A; Conners, J; Kahng, S W; Thompson, R H

    2000-01-01

    In the typical functional analysis in which the antecedent and consequent events associated with problem behavior are manipulated, the control condition involves elimination of both the relevant establishing operation (EO) and its associated contingency through a schedule of noncontingent reinforcement (usually fixed-time [FT] 30 s). In some functional analyses, however, antecedent events are manipulated in the absence of differential consequences, and a common test condition in such analyses...

  20. Engineering analyses of ITER divertor diagnostic rack design

    Energy Technology Data Exchange (ETDEWEB)

    Modestov, Victor S., E-mail: modestov@compmechlab.com [St Petersburg State Polytechnical University, 195251 St Petersburg, 29 Polytechnicheskaya (Russian Federation); Nemov, Alexander S.; Borovkov, Aleksey I.; Buslakov, Igor V.; Lukin, Aleksey V. [St Petersburg State Polytechnical University, 195251 St Petersburg, 29 Polytechnicheskaya (Russian Federation); Kochergin, Mikhail M.; Mukhin, Eugene E.; Litvinov, Andrey E.; Koval, Alexandr N. [Ioffe Physico-Technical Institute, 194021 St Petersburg, 26 Polytechnicheskaya (Russian Federation); Andrew, Philip [ITER Organization, Route de Vinon sur Verdon, 13115 Saint Paul Lez Durance (France)

    2013-10-15

    Highlights: • The approach developed early has been used for the assessment of new design of DTS racks and neutron shield units. • Results of most critical EM and seismic analyses indicate that introduced changes significantly improved the system behaviour under these loads. • However further research is required to finalize the design and check it upon meeting all structural, thermal, seismic, EM and fatigue requirements. -- Abstract: The divertor port racks used as a support structure of the divertor Thomson scattering equipment has been carefully analyzed to be consistent with electromagnetic and seismic loads. It follows from the foregoing simulations that namely these analyses demonstrate critical challenges associated with the structure design. Based on the results of the reference structure [2] a modified design of the diagnostic racks is proposed and updated simulation results are given. The results signify a significant improvement over the previous reference layout and the design will be continued towards finalization.

  1. O estado da arte da cromatografia associada à espectrometria de massas acoplada à espectrometria de massas na análise de compostos tóxicos em alimentos The state of the art of chromatography associated with the tandem mass spectrometry for toxic compound analyses in food

    Directory of Open Access Journals (Sweden)

    Mariza C. Chiaradia

    2008-01-01

    Full Text Available Chromatography combined with several different detection systems is one of the more used and better performing analytical tools. Chromatography with tandem mass spectrometric detection gives highly selective and sensitive analyses and permits obtaining structural information about the analites and about their molar masses. Due to these characteristics, this analytical technique is very efficient when used to detect substances at trace levels in complex matrices. In this paper we review instrumental and technical aspects of chromatography-tandem mass spectrometry and the state of the art of the technique as it is applied to analysis of toxic substances in food.

  2. Identifying, analysing and solving problems in practice.

    Science.gov (United States)

    Hewitt-Taylor, Jaqui

    When a problem is identified in practice, it is important to clarify exactly what it is and establish the cause before seeking a solution. This solution-seeking process should include input from those directly involved in the problematic situation, to enable individuals to contribute their perspective, appreciate why any change in practice is necessary and what will be achieved by the change. This article describes some approaches to identifying and analysing problems in practice so that effective solutions can be devised. It includes a case study and examples of how the Five Whys analysis, fishbone diagram, problem tree analysis, and Seven-S Model can be used to analyse a problem.

  3. TOGGLE: toolbox for generic NGS analyses

    OpenAIRE

    Monat, Cécile; Tranchant-Dubreuil, Christine; Kougbeadjo, Ayité; Farcy , Cédric; Ortega-Abboud, Enrique; Amanzougarene, Souhila; Ravel, Sébastien; Agbessi, Mawusse; Orjuela-Bouniol, Julie; Summo, Marilyne; Sabot, François

    2015-01-01

    Background: The explosion of NGS (Next Generation Sequencing) sequence data requires a huge effort in Bioinformatics methods and analyses. The creation of dedicated, robust and reliable pipelines able to handle dozens of samples from raw FASTQ data to relevant biological data is a time-consuming task in all projects relying on NGS. To address this, we created a generic and modular toolbox for developing such pipelines. Results: TOGGLE (TOolbox for Generic nGs anaLysEs) is a suite of tools abl...

  4. Analyse de discours et demande sociale

    OpenAIRE

    Cislaru, Georgeta; Garnier, Sylvie; Matras, Marie-Thérèse; Pugnière-Saavedra, Frédéric; Rousseau, Patrick; Sitri, Frédérique; Veniard, Marie

    2010-01-01

    Que peut nous révéler l’analyse de discours des pratiques sociétales et des pratiques discursives qui les sous-tendent ? En questionnant le discours,l'analyse de discours questionne aussi ses instances productrices : instances politiques, médiatiques, institutionnelles. Elle a ainsi engagé, depuis une quarantaine d’années, un dialogue interdisciplinaire fructueux. Avec cinq contributions d’analystes de discours et deux de professionnels de la protection de l’enfance, ce numéro des Carnets du ...

  5. TOGGLE: toolbox for generic NGS analyses

    OpenAIRE

    Monat, Cécile; Tranchant-Dubreuil, Christine; Kougbeadjo, Ayité; Farcy, Cédric; Ortega-Abboud, Enrique; Amanzougarene, Souhila; Ravel, Sébastien; Agbessi, Mawusse; Orjuela-Bouniol , Julie; Summo, Marilyne; Sabot, François

    2015-01-01

    Background The explosion of NGS (Next Generation Sequencing) sequence data requires a huge effort in Bioinformatics methods and analyses. The creation of dedicated, robust and reliable pipelines able to handle dozens of samples from raw FASTQ data to relevant biological data is a time-consuming task in all projects relying on NGS. To address this, we created a generic and modular toolbox for developing such pipelines. Results TOGGLE (TOolbox for Generic nGs anaLysEs) is a suite of tools able ...

  6. Prosjektering og analyse av en spennarmert betongbru

    OpenAIRE

    Strand, Elin Holsten; Kaldbekkdalen, Ann-Kristin

    2014-01-01

    Hensikten med rapporten er å gjennomføre analyse og dimensjonering av en etteroppspent betongbru. Modellering og analyse er gjennomført i NovaFrame 5. En del av oppgaven var å bestemme spennsystem og tverrsnittshøyden i brua. Det ble antatt seks spennkabler i felt, og tolv over støtte. Videre ble tverrsnittshøyden satt lik 1,3 meter. Dimensjoneringen ble gjennomført i henhold til gjeldende Eurokoder, aktuelle dokumenter og Håndbok 185, som er utarb...

  7. The application analyses for primary spectrum pyrometer

    Institute of Scientific and Technical Information of China (English)

    FU; TaiRan

    2007-01-01

    In the applications of primary spectrum pyrometry, based on the dynamic range and the minimum sensibility of the sensor, the application issues, such as the measurement range and the measurement partition, were investigated through theoretical analyses. For a developed primary spectrum pyrometer, the theoretical predictions of measurement range and the distributions of measurement partition were presented through numerical simulations. And the measurement experiments of high-temperature blackbody and standard temperature lamp were processed to further verify the above theoretical analyses and numerical results. Therefore the research in the paper provides the helpful supports for the applications of primary spectrum pyrometer and other radiation pyrometers.……

  8. A theoretical framework for analysing preschool teaching

    DEFF Research Database (Denmark)

    Chaiklin, Seth

    2014-01-01

    This article introduces a theoretical framework for analysing preschool teaching as a historically-grounded societal practice. The aim is to present a unified framework that can be used to analyse and compare both historical and contemporary examples of preschool teaching practice within and across...... national traditions. The framework has two main components, an analysis of preschool teaching as a practice, formed in relation to societal needs, and an analysis of the categorical relations which necessarily must be addressed in preschool teaching activity. The framework is introduced and illustrated...... teaching as a practice....

  9. Interferences in reactor neutron activation analyses

    International Nuclear Information System (INIS)

    It has been shown that interfering reactions may occur in neutron activation analyses of aluminum and zinc matrixes, commonly used in nuclear areas. The interferences analysed were: Al2713 (n, α) Na2411 and Zn6430 (n, p) Cu6429. The method used was the non-destructive neutron activation analysis and the spectra were obtained in a 1024 multichannel system coupled with a Ge(Li) detector. Sodium was detected in aluminum samples from the reactor tank and pneumatic transfer system. The independence of the sodium concentration in samples in the range of 0 - 100 ppm is shown by the attenuation obtained with the samples encapsulated in cadmium. (Author)

  10. Analyses of altimetry errors using Argo and GRACE data

    Science.gov (United States)

    Legeais, Jean-François; Prandi, Pierre; Guinehut, Stéphanie

    2016-05-01

    This study presents the evaluation of the performances of satellite altimeter missions by comparing the altimeter sea surface heights with in situ dynamic heights derived from vertical temperature and salinity profiles measured by Argo floats. The two objectives of this approach are the detection of altimeter drift and the estimation of the impact of new altimeter standards that requires an independent reference. This external assessment method contributes to altimeter calibration-validation analyses that cover a wide range of activities. Among them, several examples are given to illustrate the usefulness of this approach, separating the analyses of the long-term evolution of the mean sea level and its variability, at global and regional scales and results obtained via relative and absolute comparisons. The latter requires the use of the ocean mass contribution to the sea level derived from Gravity Recovery and Climate Experiment (GRACE) measurements. Our analyses cover the estimation of the global mean sea level trend, the validation of multi-missions altimeter products as well as the assessment of orbit solutions.Even if this approach contributes to the altimeter quality assessment, the differences between two versions of altimeter standards are getting smaller and smaller and it is thus more difficult to detect their impact. It is therefore essential to characterize the errors of the method, which is illustrated with the results of sensitivity analyses to different parameters. This includes the format of the altimeter data, the method of collocation, the temporal reference period and the processing of the ocean mass solutions from GRACE. We also assess the impact of the temporal and spatial sampling of Argo floats, the choice of the reference depth of the in situ profiles and the importance of the deep steric contribution. These analyses provide an estimation of the robustness of the method and the characterization of associated errors. The results also allow us

  11. Cosmetology: Task Analyses. Competency-Based Education.

    Science.gov (United States)

    Henrico County Public Schools, Glen Allen, VA. Virginia Vocational Curriculum Center.

    These task analyses are designed to be used in combination with the "Trade and Industrial Education Service Area Resource" in order to implement competency-based education in the cosmetology program in Virginia. The task analysis document contains the task inventory, suggested task sequence lists, and content outlines for the secondary courses…

  12. Chemical Analyses of Silicon Aerogel Samples

    CERN Document Server

    van der Werf, I; De Leo, R; Marrone, S

    2008-01-01

    After five years of operating, two Aerogel counters: A1 and A2, taking data in Hall A at Jefferson Lab, suffered a loss of performance. In this note possible causes of degradation have been studied. In particular, various chemical and physical analyses have been carried out on several Aerogel tiles and on adhesive tape in order to reveal the presence of contaminants.

  13. A gamma model for {DNA} mixture analyses

    OpenAIRE

    Cowell, R. G.; Lauritzen, S L; Mortera, J.

    2007-01-01

    We present a new methodology for analysing forensic identification problems involving DNA mixture traces where several individuals may have contributed to the trace. The model used for identification and separation of DNA mixtures is based on a gamma distribution for peak area values. In this paper we illustrate the gamma model and apply it on several real examples from forensic casework.

  14. Micromechanical photothermal analyser of microfluidic samples

    DEFF Research Database (Denmark)

    2014-01-01

    The present invention relates to a micromechanical photothermal analyser of microfluidic samples comprising an oblong micro-channel extending longitudinally from a support element, the micro-channel is made from at least two materials with different thermal expansion coefficients, wherein the...

  15. Amino acid analyses of Apollo 14 samples.

    Science.gov (United States)

    Gehrke, C. W.; Zumwalt, R. W.; Kuo, K.; Aue, W. A.; Stalling, D. L.; Kvenvolden, K. A.; Ponnamperuma, C.

    1972-01-01

    Detection limits were between 300 pg and 1 ng for different amino acids, in an analysis by gas-liquid chromatography of water extracts from Apollo 14 lunar fines in which amino acids were converted to their N-trifluoro-acetyl-n-butyl esters. Initial analyses of water and HCl extracts of sample 14240 and 14298 samples showed no amino acids above background levels.

  16. Meta-analyses on viral hepatitis

    DEFF Research Database (Denmark)

    Gluud, Lise L; Gluud, Christian

    2009-01-01

    This article summarizes the meta-analyses of interventions for viral hepatitis A, B, and C. Some of the interventions assessed are described in small trials with unclear bias control. Other interventions are supported by large, high-quality trials. Although attempts have been made to adjust...

  17. Analyses of hydraulic performance of velocity caps

    DEFF Research Database (Denmark)

    Christensen, Erik Damgaard; Degn Eskesen, Mark Chr.; Buhrkall, Jeppe;

    2014-01-01

    The hydraulic performance of a velocity cap has been investigated. Velocity caps are often used in connection with offshore intakes. CFD (computational fluid dynamics) examined the flow through the cap openings and further down into the intake pipes. This was combined with dimension analyses...

  18. Comparing functional annotation analyses with Catmap

    Directory of Open Access Journals (Sweden)

    Krogh Morten

    2004-12-01

    Full Text Available Abstract Background Ranked gene lists from microarray experiments are usually analysed by assigning significance to predefined gene categories, e.g., based on functional annotations. Tools performing such analyses are often restricted to a category score based on a cutoff in the ranked list and a significance calculation based on random gene permutations as null hypothesis. Results We analysed three publicly available data sets, in each of which samples were divided in two classes and genes ranked according to their correlation to class labels. We developed a program, Catmap (available for download at http://bioinfo.thep.lu.se/Catmap, to compare different scores and null hypotheses in gene category analysis, using Gene Ontology annotations for category definition. When a cutoff-based score was used, results depended strongly on the choice of cutoff, introducing an arbitrariness in the analysis. Comparing results using random gene permutations and random sample permutations, respectively, we found that the assigned significance of a category depended strongly on the choice of null hypothesis. Compared to sample label permutations, gene permutations gave much smaller p-values for large categories with many coexpressed genes. Conclusions In gene category analyses of ranked gene lists, a cutoff independent score is preferable. The choice of null hypothesis is very important; random gene permutations does not work well as an approximation to sample label permutations.

  19. FAME: Software for analysing rock microstructures

    Science.gov (United States)

    Hammes, Daniel M.; Peternell, Mark

    2016-05-01

    Determination of rock microstructures leads to a better understanding of the formation and deformation of polycrystalline solids. Here, we present FAME (Fabric Analyser based Microstructure Evaluation), an easy-to-use MATLAB®-based software for processing datasets recorded by an automated fabric analyser microscope. FAME is provided as a MATLAB®-independent Windows® executable with an intuitive graphical user interface. Raw data from the fabric analyser microscope can be automatically loaded, filtered and cropped before analysis. Accurate and efficient rock microstructure analysis is based on an advanced user-controlled grain labelling algorithm. The preview and testing environments simplify the determination of appropriate analysis parameters. Various statistic and plotting tools allow a graphical visualisation of the results such as grain size, shape, c-axis orientation and misorientation. The FAME2elle algorithm exports fabric analyser data to an elle (modelling software)-supported format. FAME supports batch processing for multiple thin section analysis or large datasets that are generated for example during 2D in-situ deformation experiments. The use and versatility of FAME is demonstrated on quartz and deuterium ice samples.

  20. Uncertainty quantification approaches for advanced reactor analyses.

    Energy Technology Data Exchange (ETDEWEB)

    Briggs, L. L.; Nuclear Engineering Division

    2009-03-24

    The original approach to nuclear reactor design or safety analyses was to make very conservative modeling assumptions so as to ensure meeting the required safety margins. Traditional regulation, as established by the U. S. Nuclear Regulatory Commission required conservatisms which have subsequently been shown to be excessive. The commission has therefore moved away from excessively conservative evaluations and has determined best-estimate calculations to be an acceptable alternative to conservative models, provided the best-estimate results are accompanied by an uncertainty evaluation which can demonstrate that, when a set of analysis cases which statistically account for uncertainties of all types are generated, there is a 95% probability that at least 95% of the cases meet the safety margins. To date, nearly all published work addressing uncertainty evaluations of nuclear power plant calculations has focused on light water reactors and on large-break loss-of-coolant accident (LBLOCA) analyses. However, there is nothing in the uncertainty evaluation methodologies that is limited to a specific type of reactor or to specific types of plant scenarios. These same methodologies can be equally well applied to analyses for high-temperature gas-cooled reactors and to liquid metal reactors, and they can be applied to steady-state calculations, operational transients, or severe accident scenarios. This report reviews and compares both statistical and deterministic uncertainty evaluation approaches. Recommendations are given for selection of an uncertainty methodology and for considerations to be factored into the process of evaluating uncertainties for advanced reactor best-estimate analyses.

  1. The Economic Cost of Homosexuality: Multilevel Analyses

    Science.gov (United States)

    Baumle, Amanda K.; Poston, Dudley, Jr.

    2011-01-01

    This article builds on earlier studies that have examined "the economic cost of homosexuality," by using data from the 2000 U.S. Census and by employing multilevel analyses. Our findings indicate that partnered gay men experience a 12.5 percent earnings penalty compared to married heterosexual men, and a statistically insignificant earnings…

  2. Comparison of veterinary import risk analyses studies

    NARCIS (Netherlands)

    Vos-de Jong, de C.J.; Conraths, F.J.; Adkin, A.; Jones, E.M.; Hallgren, G.S.; Paisley, L.G.

    2011-01-01

    Twenty-two veterinary import risk analyses (IRAs) were audited: a) for inclusion of the main elements of risk analysis; b) between different types of IRAs; c) between reviewers' scores. No significant differences were detected between different types of IRAs, although quantitative IRAs and IRAs publ

  3. MSL SAM-like Analyses of Hawaiian Altered Basaltic Materials: Implications for Analyses by the Mars Science Laboratory

    Science.gov (United States)

    McAdam, A.; Eigenbrode, J. L.; Young, K. E.; Bleacher, J. E.; Knudson, C. A.; Rogers, D.; Glotch, T. D.; Sutter, B.; Mahaffy, P. R.; Navarro-Gonzalez, R.; Downs, R. T.

    2015-12-01

    Samples of basaltic materials were collected during several traverses of the Kau Desert on the leeward side of the Kilauea Volcano, Hawaii, conducted by the Remote, In Situ, and Synchrotron Studies for Science and Exploration (RIS4E) team, a node of the Solar System Exploration and Research Virtual Institute (SSERVI) program. Some of these samples had been exposed to circumneutral to slightly acidic alteration conditions from exposure to fog/rain, and acidic fog/rain, while others had been exposed to more acidic conditions due to proximity to fumaroles. The samples consisted of basalts with coatings, sands and soils, and ash, and were collected using organically clean protocols to enable investigation of organic chemistry and organic-mineral associations, in addition to mineralogy. The Mars Science Laboratory (MSL) rover has analyzed basaltic materials inferred to have been altered under conditions ranging from circumneutral to acidic, but several aspects of the Sample Analysis at Mars (SAM) instrument suite results are still being investigated and analyses of relevant terrestrial analogs can play an important role in interpretation of the data. For example, all materials analyzed to date have a significant amorphous component. Comparisons of the mineralogy obtained with the MSL CheMin instrument and volatiles evolved during SAM analyses indicate that, by mass balance, some portion of the volatiles, such as SO2 and H2O, are likely associated with this component. Many of the RIS4E samples also have a significant amorphous component, and field x-ray diffraction (XRD) and x-ray fluorescence (XRF) data indicate differences in the chemistry of this material in samples exposed to different alteration conditions. Preliminary SAM-like analyses indicate that the amorphous materials in some of these samples evolve volatiles such as H2O and SO2 during heating. Here we will discuss these results, and others, obtained through SAM-like analyses of selected samples.

  4. Social Network Analyses and Nutritional Behavior: An Integrated Modeling Approach

    Directory of Open Access Journals (Sweden)

    Alistair McNair Senior

    2016-01-01

    Full Text Available Animals have evolved complex foraging strategies to obtain a nutritionally balanced diet and associated fitness benefits. Recent advances in nutrition research, combining state-space models of nutritional geometry with agent-based models of systems biology, show how nutrient targeted foraging behavior can also influence animal social interactions, ultimately affecting collective dynamics and group structures. Here we demonstrate how social network analyses can be integrated into such a modeling framework and provide a tangible and practical analytical tool to compare experimental results with theory. We illustrate our approach by examining the case of nutritionally mediated dominance hierarchies. First we show how nutritionally explicit agent-based models that simulate the emergence of dominance hierarchies can be used to generate social networks. Importantly the structural properties of our simulated networks bear similarities to dominance networks of real animals (where conflicts are not always directly related to nutrition. Finally, we demonstrate how metrics from social network analyses can be used to predict the fitness of agents in these simulated competitive environments. Our results highlight the potential importance of nutritional mechanisms in shaping dominance interactions in a wide range of social and ecological contexts. Nutrition likely influences social interaction in many species, and yet a theoretical framework for exploring these effects is currently lacking. Combining social network analyses with computational models from nutritional ecology may bridge this divide, representing a pragmatic approach for generating theoretical predictions for nutritional experiments.

  5. Identifying, analysing and solving problems in practice.

    Science.gov (United States)

    Hewitt-Taylor, Jaqui

    When a problem is identified in practice, it is important to clarify exactly what it is and establish the cause before seeking a solution. This solution-seeking process should include input from those directly involved in the problematic situation, to enable individuals to contribute their perspective, appreciate why any change in practice is necessary and what will be achieved by the change. This article describes some approaches to identifying and analysing problems in practice so that effective solutions can be devised. It includes a case study and examples of how the Five Whys analysis, fishbone diagram, problem tree analysis, and Seven-S Model can be used to analyse a problem. PMID:22848969

  6. Analyses of cavitation instabilities in ductile metals

    DEFF Research Database (Denmark)

    Tvergaard, Viggo

    2007-01-01

    , and also tests for a thin ductile metal layer bonding two ceramic blocks have indicated rapid void growth. Analyses for these material configurations are discussed here. When the void radius is very small, a nonlocal plasticity model is needed to account for observed size-effects, and recent analyses...... analyzed for a material containing a periodic distribution of spherical voids with two different void sizes, where the stress fields around larger voids may accelerate the growth of smaller voids. Another approach has been an analysis of a unit cell model in which a central cavity is discretely represented......, while the surrounding voids are represented by a porous ductile material model in terms of a field quantity that specifies the variation of the void volume fraction in the surrounding metal....

  7. Reliability of chemical analyses of water samples

    Energy Technology Data Exchange (ETDEWEB)

    Beardon, R.

    1989-11-01

    Ground-water quality investigations require reliable chemical analyses of water samples. Unfortunately, laboratory analytical results are often unreliable. The Uranium Mill Tailings Remedial Action (UMTRA) Project`s solution to this problem was to establish a two phase quality assurance program for the analysis of water samples. In the first phase, eight laboratories analyzed three solutions of known composition. The analytical accuracy of each laboratory was ranked and three laboratories were awarded contracts. The second phase consists of on-going monitoring of the reliability of the selected laboratories. The following conclusions are based on two years experience with the UMTRA Project`s Quality Assurance Program. The reliability of laboratory analyses should not be taken for granted. Analytical reliability may be independent of the prices charged by laboratories. Quality assurance programs benefit both the customer and the laboratory.

  8. Pratique de l'analyse fonctionelle

    CERN Document Server

    Tassinari, Robert

    1997-01-01

    Mettre au point un produit ou un service qui soit parfaitement adapté aux besoins et aux exigences du client est indispensable pour l'entreprise. Pour ne rien laisser au hasard, il s'agit de suivre une méthodologie rigoureuse : celle de l'analyse fonctionnelle. Cet ouvrage définit précisément cette méthode ainsi que ses champs d'application. Il décrit les méthodes les plus performantes en termes de conception de produit et de recherche de qualité et introduit la notion d'analyse fonctionnelle interne. Un ouvrage clé pour optimiser les processus de conception de produit dans son entreprise. -- Idées clés, par Business Digest

  9. Mikromechanische Analyse der Wirkungsmechanismen elektrischer Dehnungsmessstreifen

    OpenAIRE

    Stockmann, Martin

    2000-01-01

    Die elektrische Dehnungsmesstechnik auf der Grundlage separater Dehnungsmessstreifen (DMS) stellt heute eine der wesentlichsten Methoden zur experimentellen Beanspruchungs- analyse dar. Präzise Messungen außerhalb der Kalibrierbedingungen, insbesondere bei großen Deformationen oder hohen Querdehnungsanteilen, erfordern die Berücksichtigung nicht- linearer Zusammenhänge zwischen den zu bestimmenden Komponenten der Bauteildehnung und der Widerstandsänderung des Messgitters. ...

  10. El Cours d’Analyse de Cauchy

    OpenAIRE

    Pérez, Javier; Aizpuru, Antonio

    1999-01-01

    En este artículo presentamos un estudio contextualizado de Cours d’Analyse de Cauchy, analizando su significado e importancia. Presentamos especial atención al grado de elaboración teórica de límites, continuidad, series, números reales funciones y series completas, relacionando las aportaciones de Cauchi del nivel conceptual anterior a esta ahora.

  11. Mass spectrometer for the analyses of gases

    International Nuclear Information System (INIS)

    A 6-in-radius, 600 magnetic-sector mass spectrometer (designated as the MS-200) has been constructed for the quantitative and qualitative analyses of fixed gases and volatile organics in the concentration range from 1 ppM (by volume) to 100%. A partial pressure of 1 x 10-6 torr in the inlet expansion volume is required to achieve a useful signal at an electron-multiplier gain of 10,000

  12. Ethics of cost analyses in medical education

    OpenAIRE

    Walsh, Kieran

    2013-01-01

    Cost analyses in medical education are rarely straightforward, and rarely lead to clear-cut conclusions. Occasionally they do lead to clear conclusions but even when that happens, some stakeholders will ask difficult but valid questions about what to do following cost analyses–specifically about distributive justice in the allocation of resources. At present there are few or no debates about these issues and rationing decisions that are taken in medical education are largely made subconscious...

  13. En Billig GPS Data Analyse Platform

    DEFF Research Database (Denmark)

    Andersen, Ove; Christiansen, Nick; Larsen, Niels T.;

    2011-01-01

    Denne artikel præsenterer en komplet software platform til analyse af GPS data. Platformen er bygget udelukkende vha. open-source komponenter. De enkelte komponenter i platformen beskrives i detaljer. Fordele og ulemper ved at bruge open-source diskuteres herunder hvilke IT politiske tiltage, der...... organisationer med et digitalt vejkort og GPS data begynde at lave trafikanalyser på disse data. Det er et krav, at der er passende IT kompetencer tilstede i organisationen....

  14. Delvis drenert analyse av innvendig avstivet utgraving

    OpenAIRE

    Myhrvold, Michael F

    2013-01-01

    Denne masteroppgaven omhandler analyser av de delvis drenerte effektene som kan oppstå ved innvendig, avstivede utgravinger. Formålet med masteroppgaven er å gjennomføre en numerisk studie av prosessen som styrer den tidsavhengige utviklingen ved avstivede utgravinger i lavpermeable jordtyper. Det gir muligheten til å vurdere de delvis drenerte effektene og innflytelsen disse utgjør ved denne typen utgravinger. Ettersom jordens oppførsel ved små tø...

  15. Syndicats et associations

    OpenAIRE

    Bars, Loïc Le; Barthélémy, Martine; Bellanger, Emmanuel; Béroud, Sophie; Béthouart, Bruno; Boussion, Samuel; Brodiez, Axelle; Brouster, Pascale Le; Capdevielle, Jacques; Chatriot, Alain; Coffin, Jean-Christophe; Diebolt, Évelyne; Dreyfus, Michel; Faniel, Jean; Frajerman, Laurent

    2015-01-01

    Les syndicats sont et demeurent des associations dans la large acceptiondu terme. Ils émergent et se développent dans l'espace du travail où préexistent nombre d'associations, d'initiatives et d'intitulés divers. Syndicats et associations remplissent de surcroît, souvent, les mêmes fonctions et nourrissent, parfois, des objectifs similaires. L'ouvrage qui rassemble des contributions émanant d'historiens, de sociologues et de politistes s'essaie à analyser la diversité des relations qui se son...

  16. ANALYSING SPACE: ADAPTING AND EXTENDING MULTIMODAL SEMIOTICS

    Directory of Open Access Journals (Sweden)

    Louise J. Ravelli

    2015-07-01

    Full Text Available In the field of multimodal discourse analysis, one of the most exciting sites of application is that of 3D space: examining aspects of built environment for its meaningmaking potential. For the built environment – homes, offices, public buildings, parks, etc. – does indeed make meaning. These are spaces which speak – often their meanings are so familiar, we no longer hear what they say; sometimes, new and unusual sites draw attention to their meanings, and they are hotly contested. This chapter will suggest ways of analyzing 3D texts, based on the framework of Kress and van Leeuwen (2006. This framework, developed primarily for the analysis of 2D images, has been successfully extended to a range of other multimodal texts. Extension to the built environment includes Pang (2004, O’Toole (1994, Ravelli (2006, Safeyton (2004, Stenglin (2004 and White (1994, whose studies will inform the analyses presented here. This article will identify some of the key theoretical principles which underline this approach, including the notions of text, context and metafunction, and will describe some of the main areas of analysis for 3D texts. Also, ways of bringing the analyses together will be considered. The analyses will be demonstrated in relation to the Scientia building at the University of New South Wales, Australia.

  17. Passer d’un modèle de fonctionnement associatif à un modèle institutionnel : une analyse des transformations de l’organisation du travail From an associative to an institutional way of functioning: an analysis of the changes in work organization Pasar de un modelo de funcionamiento asociativo a un modelo institucional : un análisis de las transformaciones de la organización del trabajo

    Directory of Open Access Journals (Sweden)

    Brigitta Danuser

    2011-10-01

    Full Text Available Le milieu de l’humanitaire a connu des évolutions importantes durant les dernières décennies, impliquant des transformations dans les modes de fonctionnement des organisations d’aide. Nous avons réalisé une recherche au siège d’une ONG s’inscrivant dans ce contexte. Par le biais d’analyses de l’activité, d’entretiens et d’un questionnaire, nous avons mis en évidence les éléments introduits dans le contexte de la professionnalisation de la structure de cette organisation et leur perception par les acteurs. Nous avons observé la persistance de nombreux éléments relevant de la logique associative au sein de ce qui tend à devenir une institution. Les décalages résultant de la cohabitation de ces deux logiques de fonctionnement, associative et institutionnelle, créent un mode d’organisation du travail particulier et génèrent des messages paradoxaux pour les employés, lesquels peuvent avoir des effets sur leur santé.In recent decades, the context of humanitarian aid has undergone many developments involving changes in the means of operation of aid organizations. We conducted a study at the headquarters of an NGO, in which we collected data via a questionnaire, semi-structured interviews and activity analyses. We identified the elements implemented in the process of the professionalization of the management structure and how they were perceived by the employees. Numerous aspects of the associative ideal remain strong in the organization. Resistance against formal management exists, which leads to the cohabitation of these two ways of functioning which we called associative and institutional. Shifts resulting from this cohabitation create a particular mode of organization and generate paradoxical messages for the employees, which may have impacts on their health.En las últimas décadas, el contexto de la ayuda humanitaria ha conocido evoluciones importantes, lo que provocó transformaciones en el funcionamiento de

  18. Targeted changes of the cell wall proteome influence Candida albicans ability to form single- and multi-strain biofilms.

    Directory of Open Access Journals (Sweden)

    Vitor Cabral

    2014-12-01

    Full Text Available Biofilm formation is an important virulence trait of the pathogenic yeast Candida albicans. We have combined gene overexpression, strain barcoding and microarray profiling to screen a library of 531 C. albicans conditional overexpression strains (∼10% of the genome for genes affecting biofilm development in mixed-population experiments. The overexpression of 16 genes increased strain occupancy within a multi-strain biofilm, whereas overexpression of 4 genes decreased it. The set of 16 genes was significantly enriched for those encoding predicted glycosylphosphatidylinositol (GPI-modified proteins, namely Ihd1/Pga36, Phr2, Pga15, Pga19, Pga22, Pga32, Pga37, Pga42 and Pga59; eight of which have been classified as pathogen-specific. Validation experiments using either individually- or competitively-grown overexpression strains revealed that the contribution of these genes to biofilm formation was variable and stage-specific. Deeper functional analysis of PGA59 and PGA22 at a single-cell resolution using atomic force microscopy showed that overexpression of either gene increased C. albicans ability to adhere to an abiotic substrate. However, unlike PGA59, PGA22 overexpression led to cell cluster formation that resulted in increased sensitivity to shear forces and decreased ability to form a single-strain biofilm. Within the multi-strain environment provided by the PGA22-non overexpressing cells, PGA22-overexpressing cells were protected from shear forces and fitter for biofilm development. Ultrastructural analysis, genome-wide transcript profiling and phenotypic analyses in a heterologous context suggested that PGA22 affects cell adherence through alteration of cell wall structure and/or function. Taken together, our findings reveal that several novel predicted GPI-modified proteins contribute to the cooperative behaviour between biofilm cells and are important participants during C. albicans biofilm formation. Moreover, they illustrate the power

  19. Diet-induced changes in iron and n-3 fatty acid status and associations with cognitive performance in 8-11-year-old Danish children: secondary analyses of the Optimal Well-Being, Development and Health for Danish Children through a Healthy New Nordic Diet School Meal Study

    DEFF Research Database (Denmark)

    Sørensen, Louise Bergmann; Damsgaard, Camilla Trab; Dalskov, Stine-Mathilde;

    2015-01-01

    Fe and n-3 long-chain PUFA (n-3 LCPUFA) have both been associated with cognition, but evidence remains inconclusive in well-nourished school-aged children. In the Optimal Well-Being, Development and Health for Danish Children through a Healthy New Nordic Diet (OPUS) School Meal Study, the 3-month...... intervention increased reading performance, inattention, impulsivity and dietary intake of fish and Fe. This study investigated whether the intervention influenced n-3 LCPUFA and Fe status and, if so, explored how these changes correlated with the changes in cognitive performance. The study was a cluster...

  20. Development of a multi-sensor system associated with a neural network signal processing device for the analysis of air quality; Implantation materielle d'un systeme multi-capteurs et d'une structure neuronale en vue de l'analyse de la qualite de l'air

    Energy Technology Data Exchange (ETDEWEB)

    Taright, Y.; Hubin, M. [Institut National des Sciences Appliquees (INSA), Lab. Perception Systemes Information, 76 - Rouen (France)

    1999-07-01

    The chronic or accidental atmospheric pollution follow up creates a lot of reflections and various technological approaches. In order to answer the needs specified in the new law on 'air quality', we have envisaged the development of an autonomous cost effective micro-system specially dedicated to real-time air analysis. This system is based upon the electronic nose concept: that is to say the use of gas chemical micro-sensors associated with a neural network signal processing device implemented in a FPGA circuit, designed with VHDL language. (authors)

  1. Department of Energy's team's analyses of Soviet designed VVERs

    Energy Technology Data Exchange (ETDEWEB)

    1989-09-01

    This document provides Appendices A thru K of this report. The topics discussed respectively are: radiation induced embrittlement and annealing of reactor pressure vessel steels; loss of coolant accident blowdown analyses; LOCA blowdown response analyses; non-seismic structural response analyses; seismic analyses; S'' seal integrity; reactor transient analyses; fire protection; aircraft impacts; and boric acid induced corrosion. (FI).

  2. Evaluation of Model Operational Analyses during DYNAMO

    Science.gov (United States)

    Ciesielski, Paul; Johnson, Richard

    2013-04-01

    A primary component of the observing system in the DYNAMO-CINDY2011-AMIE field campaign was an atmospheric sounding network comprised of two sounding quadrilaterals, one north and one south of the equator over the central Indian Ocean. During the experiment a major effort was undertaken to ensure the real-time transmission of these data onto the GTS (Global Telecommunication System) for dissemination to the operational centers (ECMWF, NCEP, JMA, etc.). Preliminary estimates indicate that ~95% of the soundings from the enhanced sounding network were successfully transmitted and potentially used in their data assimilation systems. Because of the wide use of operational and reanalysis products (e.g., in process studies, initializing numerical simulations, construction of large-scale forcing datasets for CRMs, etc.), their validity will be examined by comparing a variety of basic and diagnosed fields from two operational analyses (ECMWF and NCEP) to similar analyses based solely on sounding observations. Particular attention will be given to the vertical structures of apparent heating (Q1) and drying (Q2) from the operational analyses (OA), which are strongly influenced by cumulus parameterizations, a source of model infidelity. Preliminary results indicate that the OA products did a reasonable job at capturing the mean and temporal characteristics of convection during the DYNAMO enhanced observing period, which included the passage of two significant MJO events during the October-November 2011 period. For example, temporal correlations between Q2-budget derived rainfall from the OA products and that estimated from the TRMM satellite (i.e., the 3B42V7 product) were greater than 0.9 over the Northern Sounding Array of DYNAMO. However closer inspection of the budget profiles show notable differences between the OA products and the sounding-derived results in low-level (surface to 700 hPa) heating and drying structures. This presentation will examine these differences and

  3. Stable isotopic analyses in paleoclimatic reconstruction

    Energy Technology Data Exchange (ETDEWEB)

    Wigand, P.E. [Univ. and Community College System of Nevada, Reno, NV (United States)

    1995-09-01

    Most traditional paleoclimatic proxy data have inherent time lags between climatic input and system response that constrain their use in accurate reconstruction of paleoclimate chronology, scaling of its variability, and the elucidation of the processes that determine its impact on the biotic and abiotic environment. With the exception of dendroclimatology, and studies of short-lived organisms and pollen recovered from annually varved lacustrine sediments, significant periods of time ranging from years, to centuries, to millennia may intervene between climate change and its first manifestation in paleoclimatic proxy data records. Reconstruction of past climate through changes in plant community composition derived from pollen sequences and plant remains from ancient woodrat middens, wet environments and dry caves all suffer from these lags. However, stable isotopic analyses can provide more immediate indication of biotic response to climate change. Evidence of past physiological response of organisms to changes in effective precipitation as climate varies can be provided by analyses of the stable isotopic content of plant macrofossils from various contexts. These analyses consider variation in the stable isotopic (hydrogen, oxygen and carbon) content of plant tissues as it reflects (1) past global or local temperature through changes in meteoric (rainfall) water chemistry in the case of the first two isotopes, and (2) plant stress through changes in plant respiration/transpiration processes under differing water availability, and varying atmospheric CO, composition (which itself may actually be a net result of biotic response to climate change). Studies currently being conducted in the Intermountain West indicate both long- and short-term responses that when calibrated with modem analogue studies have the potential of revealing not only the timing of climate events, but their direction, magnitude and rapidity.

  4. IDEA: Interactive Display for Evolutionary Analyses

    Directory of Open Access Journals (Sweden)

    Carlton Jane M

    2008-12-01

    Full Text Available Abstract Background The availability of complete genomic sequences for hundreds of organisms promises to make obtaining genome-wide estimates of substitution rates, selective constraints and other molecular evolution variables of interest an increasingly important approach to addressing broad evolutionary questions. Two of the programs most widely used for this purpose are codeml and baseml, parts of the PAML (Phylogenetic Analysis by Maximum Likelihood suite. A significant drawback of these programs is their lack of a graphical user interface, which can limit their user base and considerably reduce their efficiency. Results We have developed IDEA (Interactive Display for Evolutionary Analyses, an intuitive graphical input and output interface which interacts with PHYLIP for phylogeny reconstruction and with codeml and baseml for molecular evolution analyses. IDEA's graphical input and visualization interfaces eliminate the need to edit and parse text input and output files, reducing the likelihood of errors and improving processing time. Further, its interactive output display gives the user immediate access to results. Finally, IDEA can process data in parallel on a local machine or computing grid, allowing genome-wide analyses to be completed quickly. Conclusion IDEA provides a graphical user interface that allows the user to follow a codeml or baseml analysis from parameter input through to the exploration of results. Novel options streamline the analysis process, and post-analysis visualization of phylogenies, evolutionary rates and selective constraint along protein sequences simplifies the interpretation of results. The integration of these functions into a single tool eliminates the need for lengthy data handling and parsing, significantly expediting access to global patterns in the data.

  5. Comparison of elastic and inelastic analyses

    International Nuclear Information System (INIS)

    The use of inelastic analysis methods instead of the traditional elastic analysis methods in the design of radioactive material (RAM) transport packagings leads to a better understanding of the response of the package to mechanical loadings. Thus, better assessment of the containment, thermal protection, and shielding integrity of the package after a structure accident event can be made. A more accurate prediction of the package response can lead to enhanced safety and also allow for a more efficient use of materials, possibly leading to a package with higher capacity or lower weight. This paper discusses the advantages and disadvantages of using inelastic analysis in the design of RAM shipping packages. The use of inelastic analysis presents several problems to the package designer. When using inelastic analysis the entire nonlinear response of the material must be known, including the effects of temperature changes and strain rate. Another problem is that there currently is not an acceptance criteria for this type of analysis that is approved by regulatory agencies. Inelastic analysis acceptance criteria based on failure stress, failure strain , or plastic energy density could be developed. For both elastic and inelastic analyses it is also important to include other sources of stress in the analyses, such as fabrication stresses, thermal stresses, stresses from bolt preloading, and contact stresses at material interfaces. Offsetting these added difficulties is the improved knowledge of the package behavior. This allows for incorporation of a more uniform margin of safety, which can result in weight savings and a higher level of confidence in the post-accident configuration of the package. In this paper, comparisons between elastic and inelastic analyses are made for a simple ring structure and for a package to transport a large quantity of RAM by rail (rail cask) with lead gamma shielding to illustrate the differences in the two analysis techniques

  6. FEM-ANALYSE AV INDUSTRIELL ALUMINIUMSPROFILEKSTRUDERING

    OpenAIRE

    Christenssen, Wenche

    2014-01-01

    Avhandlingen er skrevet for å øke forståelsen og kunnskapen rundt materialflyt ved ekstruderingav komplekse og tynnvegde aluminiumprofiler. Det gjennomgås også hvordan ujevn materialflyt utav en matrise kan avbalanseres ved bruk av forkammer.Rapporten tar for seg oppbygning av modeller og simulering for to forskjellige profilgeometrier.Det første profilet er et U-profil som det tidligere er gjort analyser av ved bruk av modellmateriale.Dette ble gjort i en Diplom...

  7. Erregerspektrum bei tiefen Halsinfektionen: Eine retrospektive Analyse

    OpenAIRE

    Sömmer, C; Haid, M; Hommerich, C; Laskawi, R; Canis, M; Matthias, C

    2014-01-01

    Einleitung: Tiefe Halsinfektionen zählen zu den gefährlichsten Erkrankungen in der HNO-Heilkunde. Diese Analyse gibt einen Überblick über die Mikrobiologie tiefer Halsinfektionen und Einflussfaktoren, die zu einer Änderung des Keimspektrums führen können. Methoden: Von Januar 2002 bis Dezember 2012 wurden 63 Patienten mit tiefen Halsinfektionen in der HNO-Klinik der Universitätsmedizin Göttingen behandelt. Es wurden intraoperative Abstriche entnommen. Die Inzidenz der häufigsten Erreger wur...

  8. Use of Geospatial Analyses for Semantic Reasoning

    OpenAIRE

    Karmacharya, Ashish; Cruz, Christophe; Boochs, Frank; Marzani, Franck

    2010-01-01

    International audience This work focuses on the integration of the spatial analyses for semantic reasoning in order to compute new axioms of an existing OWL ontology. To make it concrete, we have defined Spatial Built-ins, an extension of existing Built-ins of the SWRL rule language. It permits to run deductive rules with the help of a translation rule engine. Thus, the Spatial SWRL rules are translated to standard SWRL rules. Once the spatial functions of the Spatial SWRL rules are comput...

  9. Hybrid Logical Analyses of the Ambient Calculus

    DEFF Research Database (Denmark)

    Bolander, Thomas; Hansen, Rene Rydhof

    2010-01-01

    In this paper, hybrid logic is used to formulate three control flow analyses for Mobile Ambients, a process calculus designed for modelling mobility. We show that hybrid logic is very well-suited to express the semantic structure of the ambient calculus and how features of hybrid logic can...... be exploited to reduce the "administrative overhead" of the analysis specification and thus simplify it. Finally, we use HyLoTab, a fully automated theorem prover for hybrid logic, both as a convenient platform for a prototype implementation as well as to formally prove the correctness of the analysis. (C...

  10. Analyses of containment structures with corrosion damage

    International Nuclear Information System (INIS)

    Corrosion damage to a nuclear power plant containment structure can degrade the pressure capacity of the vessel. For the low-carbon, low- strength steels used in containments, the effect of corrosion on material properties is discussed. Strain-to-failure tests, in uniaxial tension, have been performed on corroded material samples. Results were used to select strain-based failure criteria for corroded steel. Using the ABAQUS finite element analysis code, the capacity of a typical PWR Ice Condenser containment with corrosion damage has been studied. Multiple analyses were performed with the locations of the corrosion the containment, and the amount of corrosion varied in each analysis

  11. Rod Ellis, Gary Barkhuizen, Analysing Learner Language

    OpenAIRE

    Narcy-Combes, Marie-Françoise

    2014-01-01

    Ce livre vient à point nommé pour compléter les outils à la disposition des jeunes chercheurs en linguistique appliquée et didactique des langues, comme des praticiens de terrain désireux de conduire une recherche-action. Comme souvent en ce qui concerne les ouvrages de Rod Ellis, il s’agit d’une somme : une étude diachronique des outils utilisés depuis les années soixante par les chercheurs en acquisition des langues pour l’analyse des productions écrites et orales des apprenants de langue. ...

  12. En analyse av Yoga-kundalini-upanisad

    OpenAIRE

    2006-01-01

    Avhandlingen En analyse av Yoga-kundalini-upanisad bygger på den indiske asketen Narayanaswamy Aiyers engelske oversettelse av Yoga-kundalini-upanisad, utgitt i Thirty Minor Upanisad-s, Including the Yoga Upanisad-s (Oklahoma, Santarasa Publications, 1980). Denne hinduistiske teksten er omtalt som en av de 21 yoga-upanishadene, den åttisjette av de 108 klassiske upanishadene, og utgjør en del av tekstkorpuset Krsna-Yajurveda. Teksten fungerer som en manual i øvelser fra disiplinene hathayoga,...

  13. Introduction: Analysing Emotion and Theorising Affect

    Directory of Open Access Journals (Sweden)

    Peta Tait

    2016-08-01

    Full Text Available This discussion introduces ideas of emotion and affect for a volume of articles demonstrating the scope of approaches used in their study within the humanities and creative arts. The volume offers multiple perspectives on emotion and affect within 20th-century and 21st-century texts, arts and organisations and their histories. The discussion explains how emotion encompasses the emotions, emotional feeling, sensation and mood and how these can be analysed particularly in relation to literature, art and performance. It briefly summarises concepts of affect theory within recent approaches before introducing the articles.

  14. Fully Coupled FE Analyses of Buried Structures

    Directory of Open Access Journals (Sweden)

    James T. Baylot

    1994-01-01

    Full Text Available Current procedures for determining the response of buried structures to the effects of the detonation of buried high explosives recommend decoupling the free-field stress analysis from the structure response analysis. A fully coupled (explosive–soil structure finite element analysis procedure was developed so that the accuracies of current decoupling procedures could be evaluated. Comparisons of the results of analyses performed using this procedure with scale-model experiments indicate that this finite element procedure can be used to effectively evaluate the accuracies of the methods currently being used to decouple the free-field stress analysis from the structure response analysis.

  15. Hitchhikers’ guide to analysing bird ringing data

    Directory of Open Access Journals (Sweden)

    Harnos Andrea

    2015-12-01

    Full Text Available Bird ringing datasets constitute possibly the largest source of temporal and spatial information on vertebrate taxa available on the globe. Initially, the method was invented to understand avian migration patterns. However, data deriving from bird ringing has been used in an array of other disciplines including population monitoring, changes in demography, conservation management and to study the effects of climate change to name a few. Despite the widespread usage and importance, there are no guidelines available specifically describing the practice of data management, preparation and analyses of ringing datasets. Here, we present the first of a series of comprehensive tutorials that may help fill this gap. We describe in detail and through a real-life example the intricacies of data cleaning and how to create a data table ready for analyses from raw ringing data in the R software environment. Moreover, we created and present here the R package; ringR, designed to carry out various specific tasks and plots related to bird ringing data. Most methods described here can also be applied to a wide range of capture-recapture type data based on individual marking, regardless to taxa or research question.

  16. Transportation systems analyses: Volume 1: Executive Summary

    Science.gov (United States)

    1993-05-01

    The principal objective of this study is to accomplish a systems engineering assessment of the nation's space transportation infrastructure. This analysis addresses the necessary elements to perform man delivery and return, cargo transfer, cargo delivery, payload servicing, and the exploration of the Moon and Mars. Specific elements analyzed, but not limited to, include the Space Exploration Initiative (SEI), the National Launch System (NLS), the current expendable launch vehicle (ELV) fleet, ground facilities, the Space Station Freedom (SSF), and other civil, military and commercial payloads. The performance of this study entails maintaining a broad perspective on the large number of transportation elements that could potentially comprise the U.S. space infrastructure over the next several decades. To perform this systems evaluation, top-level trade studies are conducted to enhance our understanding of the relationships between elements of the infrastructure. This broad 'infrastructure-level perspective' permits the identification of preferred infrastructures. Sensitivity analyses are performed to assure the credibility and usefulness of study results. This executive summary of the transportation systems analyses (TSM) semi-annual report addresses the SSF logistics resupply. Our analysis parallels the ongoing NASA SSF redesign effort. Therefore, there could be no SSF design to drive our logistics analysis. Consequently, the analysis attempted to bound the reasonable SSF design possibilities (and the subsequent transportation implications). No other strategy really exists until after a final decision is rendered on the SSF configuration.

  17. Ethics of cost analyses in medical education.

    Science.gov (United States)

    Walsh, Kieran

    2013-11-01

    Cost analyses in medical education are rarely straightforward, and rarely lead to clear-cut conclusions. Occasionally they do lead to clear conclusions but even when that happens, some stakeholders will ask difficult but valid questions about what to do following cost analyses-specifically about distributive justice in the allocation of resources. At present there are few or no debates about these issues and rationing decisions that are taken in medical education are largely made subconsciously. Distributive justice 'concerns the nature of a socially just allocation of goods in a society'. Inevitably there is a large degree of subjectivity in the judgment as to whether an allocation is seen as socially just or ethical. There are different principles by which we can view distributive justice and which therefore affect the prism of subjectivity through which we see certain problems. For example, we might say that distributive justice at a certain institution or in a certain medical education system operates according to the principle that resources must be divided equally amongst learners. Another system may say that resources should be distributed according to the needs of learners or even of patients. No ethical system or model is inherently right or wrong, they depend on the context in which the educator is working. PMID:24203859

  18. Bioinformatics tools for analysing viral genomic data.

    Science.gov (United States)

    Orton, R J; Gu, Q; Hughes, J; Maabar, M; Modha, S; Vattipally, S B; Wilkie, G S; Davison, A J

    2016-04-01

    The field of viral genomics and bioinformatics is experiencing a strong resurgence due to high-throughput sequencing (HTS) technology, which enables the rapid and cost-effective sequencing and subsequent assembly of large numbers of viral genomes. In addition, the unprecedented power of HTS technologies has enabled the analysis of intra-host viral diversity and quasispecies dynamics in relation to important biological questions on viral transmission, vaccine resistance and host jumping. HTS also enables the rapid identification of both known and potentially new viruses from field and clinical samples, thus adding new tools to the fields of viral discovery and metagenomics. Bioinformatics has been central to the rise of HTS applications because new algorithms and software tools are continually needed to process and analyse the large, complex datasets generated in this rapidly evolving area. In this paper, the authors give a brief overview of the main bioinformatics tools available for viral genomic research, with a particular emphasis on HTS technologies and their main applications. They summarise the major steps in various HTS analyses, starting with quality control of raw reads and encompassing activities ranging from consensus and de novo genome assembly to variant calling and metagenomics, as well as RNA sequencing.

  19. CHEMICAL ANALYSES OF SODIUM SYSTEMS FINAL REPORT

    Energy Technology Data Exchange (ETDEWEB)

    Greenhalgh, W. O.; Yunker, W. H.; Scott, F. A.

    1970-06-01

    BNWL-1407 summarizes information gained from the Chemical Analyses of Sodium Systems Program pursued by Battelle- Northwest over the period from July 1967 through June 1969. Tasks included feasibility studies for performing coulometric titration and polarographic determinations of oxygen in sodium, and the development of new separation techniques for sodium impurities and their subsequent analyses. The program was terminated ahead of schedule so firm conclusions were not obtained in all areas of the work. At least 40 coulometric titrations were carried out and special test cells were developed for coulometric application. Data indicated that polarographic measurements are theoretically feasible, but practical application of the method was not verified. An emission spectrographic procedure for trace metal impurities was developed and published. Trace metal analysis by a neutron activation technique was shown to be feasible; key to the success of the activation technique was the application of a new ion exchange resin which provided a sodium separation factor of 10{sup 11}. Preliminary studies on direct scavenging of trace metals produced no conclusive results.

  20. ANALYSES ON SYSTEMATIC CONFRONTATION OF FIGHTER AIRCRAFT

    Institute of Scientific and Technical Information of China (English)

    HuaiJinpeng; WuZhe; HuangJun

    2002-01-01

    Analyses of the systematic confrontation between two military forcfes are the highest hierarchy on opera-tional effectiveness study of weapon systema.The physi-cal model for tactical many-on-many engagements of an aerial warfare with heterogeneous figher aircraft is estab-lished.On the basis of Lanchester multivariate equations of square law,a mathematical model corresponding to the established physical model is given.A superiorityh parame-ter is then derived directly from the mathematical model.With view to the high -tech condition of modern war-fare,the concept of superiority parameter which more well and truly reflects the essential of an air-to-air en-gagement is further formulated.The attrition coeffi-cients,which are key to the differential equations,are de-termined by using tactics of random target assignment and air-to-air capability index of the fighter aircraft.Hereby,taking the mathematical model and superiority parameter as cores,calculations amd analyses of complicate systemic problems such as evaluation of battle superiority,prog-mostication of combat process and optimization of colloca-tions have been accomplished.Results indicate that a clas-sical combat theory with its certain recent development has received newer applications in the military operation research for complicated confrontation analysis issues.

  1. Sensitivity in risk analyses with uncertain numbers.

    Energy Technology Data Exchange (ETDEWEB)

    Tucker, W. Troy; Ferson, Scott

    2006-06-01

    Sensitivity analysis is a study of how changes in the inputs to a model influence the results of the model. Many techniques have recently been proposed for use when the model is probabilistic. This report considers the related problem of sensitivity analysis when the model includes uncertain numbers that can involve both aleatory and epistemic uncertainty and the method of calculation is Dempster-Shafer evidence theory or probability bounds analysis. Some traditional methods for sensitivity analysis generalize directly for use with uncertain numbers, but, in some respects, sensitivity analysis for these analyses differs from traditional deterministic or probabilistic sensitivity analyses. A case study of a dike reliability assessment illustrates several methods of sensitivity analysis, including traditional probabilistic assessment, local derivatives, and a ''pinching'' strategy that hypothetically reduces the epistemic uncertainty or aleatory uncertainty, or both, in an input variable to estimate the reduction of uncertainty in the outputs. The prospects for applying the methods to black box models are also considered.

  2. Waste Stream Analyses for Nuclear Fuel Cycles

    Energy Technology Data Exchange (ETDEWEB)

    N. R. Soelberg

    2010-08-01

    A high-level study was performed in Fiscal Year 2009 for the U.S. Department of Energy (DOE) Office of Nuclear Energy (NE) Advanced Fuel Cycle Initiative (AFCI) to provide information for a range of nuclear fuel cycle options (Wigeland 2009). At that time, some fuel cycle options could not be adequately evaluated since they were not well defined and lacked sufficient information. As a result, five families of these fuel cycle options are being studied during Fiscal Year 2010 by the Systems Analysis Campaign for the DOE NE Fuel Cycle Research and Development (FCRD) program. The quality and completeness of data available to date for the fuel cycle options is insufficient to perform quantitative radioactive waste analyses using recommended metrics. This study has been limited thus far to qualitative analyses of waste streams from the candidate fuel cycle options, because quantitative data for wastes from the front end, fuel fabrication, reactor core structure, and used fuel for these options is generally not yet available.

  3. Les conditions de l’analyse qualitative

    Directory of Open Access Journals (Sweden)

    Pierre Paillé

    2011-07-01

    Full Text Available Les méthodes d’analyse des données qualitatives et le monde informatique étaient faits pour se rencontrer. Et en effet, la question est d’actualité et les outils informatiques nombreux et avancés. Ce phénomène ne saurait s’estomper, d’autant moins que l’analyse des données secondaires connaît en même temps des développements importants. Mais l’attrait pour les logiciels d’analyse peut devenir tel qu’on ne verrait plus trop à quel titre et pour quelles raisons on pourrait s’en passer. L’article tente de cerner une vision et une pratique de l’analyse qualitative qui, dans son essence, ne se prête pas à l’utilisation d’outils informatiques spécialisés. Il situe sa réflexion dans le cadre de la méthodologie qualitative (démarche qualitative, recherche qualitative, analyse qualitative, plus particulièrement au niveau de l’enquête qualitative de terrain.The conditions of qualitative analysisThe methods for analyzing qualitative data and the computer world were meant to meet. And, by that, the question is valid and computer tools numerous and advanced. This phenomenon will not slowdown, especially not since secondary data analysis experiences significant developments. But the attraction for analysis software could develop so that we would not see too much why and for what type of reasons we could part from them. This article attempts to define a vision and a practice of qualitative analysis that, in essence, does not use specialized computer tools. It situates its reflection within qualitative methodology (qualitative approaches, qualitative research, qualitative analysis and moreover in the level of qualitative fieldwork investigation.Las condiciones del análisis cualitativo. Reflexiones sobre la utilización de programas informáticosLos métodos de análisis de los datos cualitativos y el mundo de la informática han nacido para entenderse mutualmente. En efecto, la cuestión es actual y los

  4. Análisis de asociación de nuevos polimorfismos en el promotor del gen MMP- 1 y osteoartritis secundaria a displasia de cadera en perros. Association analyses of novel polymorphisms in the MMP-1 promoter gene with osteoarthritis secondary to hip dysplasia in dogs

    Directory of Open Access Journals (Sweden)

    V.B. Fassa

    2010-12-01

    of the canine MMP-1 promoter gene and evaluate their association with OA secondary to HD in different dog breeds. Based on the NCBI_006587 reference sequence, two novel polymorphisms, Indel CTGCCCT (bp31986794 and C>T (bpSNP 31986815 substitution were selected due their position in a consensus sequence belonging to a SAF-1 response element. Data was uploaded in the GenBank database (accession number GQ475524 and GQ475525. 125 dogs of different breeds were sampled and hip status was evaluated through ventrodorsal extended-hip radiographs. A chi-squared analysis was performed to test the association of the variables: breed, sex and genotype for each polymorphism with OA status (healthy and affected. No significant association (p>0.05 was found between any variable and OA secondary to HD. This study does not exclude MMP-1 as a gene responsible of OA secondary to HD in the breeds sampled because only the promoter sequence was evaluated.

  5. Coevolutionary analyses of the relationships between piroplasmids and their hard tick hosts

    OpenAIRE

    Gou, Huitian; Guan, Guiquan; Liu, Aihong; Ma, Miling; Chen, Ze; LIU, Zhijie; Ren, Qiaoyun; Li, Youquan; Yang, Jifei; Yin, Hong; Luo, Jianxun

    2013-01-01

    Host–parasite coevolution is a key driver of biological diversity. To examine the evolutionary relationships between piroplasmids and their hard tick hosts, we calculated the molecular clock and conducted phylogenetic analyses of both groups. Based on our results, we conclude that the divergence time of piroplasmids (∼56 Mya) is later than divergence time of their hard tick hosts (∼86 Mya). From analyses of the evolution of both piroplasmid and vector lineages and their association, we know t...

  6. Nuclear Analyses For ITER NB System

    International Nuclear Information System (INIS)

    Full text: Detailed nuclear analyses for the latest ITER NB system are required to ensure that NB design conforms to the nuclear regulations and licensing. A variety of nuclear analyses was conducted for the NB system including a tokamak building and outside the building by using Monte Carlo code MCNP5.14, activation code ACT-4 and Fusion Evaluated Nuclear Data Library FENDL-2.1. A special “Direct 1-step Monte Carlo” method is adopted for the shutdown dose rate calculation. The NB system and the tokamak building are very complicated, and it is practically impossible to make geometry input data manually. We used the automatic converter code GEOMIT from CAD data to MCNP geometry input data. GEOMIT was improved for these analyses, and the conversion performance was drastically enhanced. Void cells in MCNP input data were generated by subtracting solid cells data from simple rectangular void cells. The CAD data were successfully converted to MCNP geometry input data, and void data were also adequately produced with GEOMIT. The effective dose rates at external zones (non-controlled areas) should be less than 80 μSv/month according to French regulations. Shielding structures are under analysis to reduce the radiation streaming through the openings. We are confirming that the criterion is satisfied for the NB system. The effective dose rate data in the NB cell after shutdown are necessary to check the dose rate during possible rad-works for maintenance. Dose rates for workers must be maintained as low as reasonably achievable, and at locations where hands-on maintenance is performed should be below a target of 100 μSv/h at 12 days after shutdown. We are specifying the adequate zoning and area where hands-on maintenance can be allowed, based on the analysis results. The cask design for transport activated NB components is an important issue, and we are calculating the effective dose rates. The target of the effective dose rate from the activated NB components is less

  7. Trend Analyses of Nitrate in Danish Groundwater

    DEFF Research Database (Denmark)

    Hansen, B.; Thorling, L.; Dalgaard, Tommy;

    2012-01-01

    This presentation assesses the long-term development in the oxic groundwater nitrate concentration and nitrogen (N) loss due to intensive farming in Denmark. Firstly, up to 20-year time-series from the national groundwater monitoring network enable a statistically systematic analysis...... two dataset. The development in the nitrate concentration of oxic groundwater clearly mirrors the development in the national agricultural N surplus, and a corresponding trend reversal is found in groundwater. Regulation and technical improvements in the intensive farming in Denmark have succeeded...... in decreasing the N surplus by 40% since the mid 1980s while at the same time maintaining crop yields and increasing the animal production of especially pigs. Trend analyses prove that the youngest (0-15 years old) oxic groundwater shows more pronounced significant downward nitrate trends (44%) than the oldest...

  8. Thermal hydraulic reactor safety analyses and experiments

    International Nuclear Information System (INIS)

    The report introduces the results of the thermal hydraulic reactor safety research performed in the Nuclear Engineering Laboratory of the Technical Research Centre of Finland (VTT) during the years 1972-1987. Also practical applications i.e. analyses for the safety authorities and power companies are presented. The emphasis is on description of the state-of-the-art know how. The report describes VTT's most important computer codes, both those of foreign origin and those developed at VTT, and their assessment work, VTT's own experimental research, as well as international experimental projects and other forms of cooperation VTT has participated in. Appendix 8 contains a comprehensive list of the most important publications and technical reports produced. They present the content and results of the research in detail.(orig.)

  9. Reliability and safety analyses under fuzziness

    International Nuclear Information System (INIS)

    Fuzzy theory, for example possibility theory, is compatible with probability theory. What is shown so far is that probability theory needs not be replaced by fuzzy theory, but rather that the former works much better in applications if it is combined with the latter. In fact, it is said that there are two essential uncertainties in the field of reliability and safety analyses: One is a probabilistic uncertainty which is more relevant for mechanical systems and the natural environment, and the other is fuzziness (imprecision) caused by the existence of human beings in systems. The classical probability theory alone is therefore not sufficient to deal with uncertainties in humanistic system. In such a context this collection of works will put a milestone in the arguments of probability theory and fuzzy theory. This volume covers fault analysis, life time analysis, reliability, quality control, safety analysis and risk analysis. (orig./DG). 106 figs

  10. Anthocyanin analyses of Vaccinium fruit dietary supplements.

    Science.gov (United States)

    Lee, Jungmin

    2016-09-01

    Vaccinium fruit ingredients within dietary supplements were identified by comparisons with anthocyanin analyses of known Vaccinium profiles (demonstration of anthocyanin fingerprinting). Available Vaccinium supplements were purchased and analyzed, their anthocyanin profiles (based on high-performance liquid chromatography [HPLC] separation) indicated if products' fruit origin listings were authentic. Over 30% of the Vaccinium fruit (cranberry, lingonberry, bilberry, and blueberry; 14 of 45) products available as dietary supplements did not contain the fruit listed as ingredients. Six supplements contained no anthocyanins. Five others had contents differing from labeled fruit (e.g., bilberry capsules containing Andean blueberry fruit). Of the samples that did contain the specified fruit (n = 27), anthocyanin content ranged from 0.04 to 14.37 mg per capsule, tablet, or teaspoon (5 g). Approaches to utilizing anthocyanins in assessment of sample authenticity, and a discussion of the challenges with anthocyanin profiles in quality control are both presented. PMID:27625778

  11. Feasibility Analyses of Integrated Broiler Production

    Directory of Open Access Journals (Sweden)

    L. Komalasari

    2010-12-01

    Full Text Available The major obstacles in the development of broiler raising is the expensive price of feed and the fluctuative price of DOCs. The cheap price of imported leg quarters reduces the competitiveness of the local broilers. Therefore, an effort to increase production efficiency is needed through integration between broiler raising and corn farmers and feed producers (integrated farming. The purpose of this study is to analyze the feasibility of integrating broiler raising with corn cultivation and feed production. Besides that, a simulation was conducted to analyze the effects of DOC price changes, broiler price and production capacity. The analyses showed that integrated farming and a mere combination between broiler raising and feed factory of a 10,000 bird capacity is not financially feasible. Increasing the production to 25,000 broiler chickens will make the integrated farming financially feasible. Unintegrated broiler raising is relatively sensitive to broiler price decreases and DOC price increases compared to integrated farming.

  12. Genetic Analyses of Meiotic Recombination in Arabidopsis

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Meiosis is essential for sexual reproduction and recombination is a critical step required for normal meiosis. Understanding the underlying molecular mechanisms that regulate recombination ie important for medical, agricultural and ecological reasons. Readily available molecular and cytological tools make Arabidopsis an excellent system to study meiosis. Here we review recent developments in molecular genetic analyses on meiotic recombination. These Include studies on plant homologs of yeast and animal genes, as well as novel genes that were first identified in plants. The characterizations of these genes have demonstrated essential functions from the initiation of recombination by double-strand breaks to repair of such breaks, from the formation of double-Holliday junctions to possible resolution of these junctions, both of which are critical for crossover formation. The recent advances have ushered a new era in plant meiosis, in which the combination of genetics, genomics, and molecular cytology can uncover important gene functions.

  13. Attitude stability analyses for small artificial satellites

    International Nuclear Information System (INIS)

    The objective of this paper is to analyze the stability of the rotational motion of a symmetrical spacecraft, in a circular orbit. The equilibrium points and regions of stability are established when components of the gravity gradient torque acting on the spacecraft are included in the equations of rotational motion, which are described by the Andoyer's variables. The nonlinear stability of the equilibrium points of the rotational motion is analysed here by the Kovalev-Savchenko theorem. With the application of the Kovalev-Savchenko theorem, it is possible to verify if they remain stable under the influence of the terms of higher order of the normal Hamiltonian. In this paper, numerical simulations are made for a small hypothetical artificial satellite. Several stable equilibrium points were determined and regions around these points have been established by variations in the orbital inclination and in the spacecraft principal moment of inertia. The present analysis can directly contribute in the maintenance of the spacecraft's attitude

  14. Spatial Analyses of Harappan Urban Settlements

    Directory of Open Access Journals (Sweden)

    Hirofumi Teramura

    2006-12-01

    Full Text Available The Harappan Civilization occupies a unique place among the early civilizations of the world with its well planned urban settlements, advanced handicraft and technology, religious and trade activities. Using a Geographical Information Systems (GIS, this study presents spatial analyses that locate urban settlements on a digital elevation model (DEM according to the three phases of early, mature and late. Understanding the relationship between the spatial distribution of Harappan sites and the change in some factors, such as topographic features, river passages or sea level changes, will lead to an understanding of the dynamism of this civilization. It will also afford a glimpse of the factors behind the formation, development, and decline of the Harappan Civilization.

  15. Analysing weak orbital signals in Gaia data

    CERN Document Server

    Lucy, L B

    2014-01-01

    Anomalous orbits are found when minimum-chi^{2} estimation is applied to synthetic Gaia data for weak orbital signals - i.e., orbits whose astrometric signatures are comparable to the single-scan measurement error (Pourbaix 2002). These orbits are nearly parabolic, edge-on, and their major axes align with the line-of-sight to the observer. Such orbits violate the Copernican principle (CPr) and as such could be rejected. However, the preferred alternative is to develop a statistical technique that incorporates the CPr as a fundamental postulate. This can be achieved in the context of Bayesian estimation by defining a Copernican prior. With this development, Pourbaix's anomalous orbits no longer arise. Instead, orbits with a somewhat higher chi^{2} but which do not violate the CPr are selected. Other areas of astronomy where the investigator must analyse data from 'imperfect experiments' might similarly benefit from appropriately- defined Copernican priors.

  16. Modelling and Analysing Socio-Technical Systems

    DEFF Research Database (Denmark)

    Aslanyan, Zaruhi; Ivanova, Marieta Georgieva; Nielson, Flemming;

    2015-01-01

    Modern organisations are complex, socio-technical systems consisting of a mixture of physical infrastructure, human actors, policies and processes. An in-creasing number of attacks on these organisations exploits vulnerabilities on all different levels, for example combining a malware attack...... with social engineering. Due to this combination of attack steps on technical and social levels, risk assessment in socio-technical systems is complex. Therefore, established risk assessment methods often abstract away the internal structure of an organisation and ignore human factors when modelling...... and assessing attacks. In our work we model all relevant levels of socio-technical systems, and propose evaluation techniques for analysing the security properties of the model. Our approach simplifies the identification of possible attacks and provides qualified assessment and ranking of attacks based...

  17. Externalizing Behaviour for Analysing System Models

    DEFF Research Database (Denmark)

    Ivanova, Marieta Georgieva; Probst, Christian W.; Hansen, René Rydhof;

    2013-01-01

    System models have recently been introduced to model organisations and evaluate their vulnerability to threats and especially insider threats. Especially for the latter these models are very suitable, since insiders can be assumed to have more knowledge about the attacked organisation than outside...... attackers. Therefore, many attacks are considerably easier to be performed for insiders than for outsiders. However, current models do not support explicit specification of different behaviours. Instead, behaviour is deeply embedded in the analyses supported by the models, meaning that it is a complex......, if not impossible task to change behaviours. Especially when considering social engineering or the human factor in general, the ability to use different kinds of behaviours is essential. In this work we present an approach to make the behaviour a separate component in system models, and explore how to integrate...

  18. Analysing Medieval Urban Space; a methodology

    Directory of Open Access Journals (Sweden)

    Marlous L. Craane MA

    2007-08-01

    Full Text Available This article has been written in reaction to recent developments in medieval history and archaeology, to study not only the buildings in a town but also the spaces that hold them together. It discusses a more objective and interdisciplinary approach for analysing urban morphology and use of space. It proposes a 'new' methodology by combining town plan analysis and space syntax. This methodology was trialled on the city of Utrecht in the Netherlands. By comparing the results of this 'new' methodology with the results of previous, more conventional, research, this article shows that space syntax can be applied successfully to medieval urban contexts. It does this by demonstrating a strong correlation between medieval economic spaces and the most integrated spaces, just as is found in the study of modern urban environments. It thus provides a strong basis for the use of this technique in future research of medieval urban environments.

  19. Cointegration Approach to Analysing Inflation in Croatia

    Directory of Open Access Journals (Sweden)

    Lena Malešević-Perović

    2009-06-01

    Full Text Available The aim of this paper is to analyse the determinants of inflation in Croatia in the period 1994:6-2006:6. We use a cointegration approach and find that increases in wages positively influence inflation in the long-run. Furthermore, in the period from June 1994 onward, the depreciation of the currency also contributed to inflation. Money does not explain Croatian inflation. This irrelevance of the money supply is consistent with its endogeneity to exchange rate targeting, whereby the money supply is determined by developments in the foreign exchange market. The value of inflation in the previous period is also found to be significant, thus indicating some inflation inertia.

  20. Analysing Terrorism from a Systems Thinking Perspective

    Directory of Open Access Journals (Sweden)

    Lukas Schoenenberger

    2014-02-01

    Full Text Available Given the complexity of terrorism, solutions based on single factors are destined to fail. Systems thinking offers various tools for helping researchers and policy makers comprehend terrorism in its entirety. We have developed a semi-quantitative systems thinking approach for characterising relationships between variables critical to terrorism and their impact on the system as a whole. For a better understanding of the mechanisms underlying terrorism, we present a 16-variable model characterising the critical components of terrorism and perform a series of highly focused analyses. We show how to determine which variables are best suited for government intervention, describing in detail their effects on the key variable—the political influence of a terrorist network. We also offer insights into how to elicit variables that destabilise and ultimately break down these networks. Because we clarify our novel approach with fictional data, the primary importance of this paper lies in the new framework for reasoning that it provides.

  1. First international intercomparison of image analysers

    CERN Document Server

    Pálfalvi, J; Eoerdoegh, I

    1999-01-01

    Image analyser systems used for evaluating solid state nuclear track detectors (SSNTD) were compared in order to establish minimum hardware and software requirements and methodology necessary in different fields of radiation dosimetry. For the purpose, CR-39 detectors (TASL, Bristol, U.K.) were irradiated with different (n,alpha) and (n,p) converters in a reference Pu-Be neutron field, in an underground laboratory with high radon concentration and by different alpha sources at the Atomic Energy Research Institute (AERI) in Budapest, Hungary. 6 sets of etched and pre-evaluated detectors and the 7th one without etching were distributed among the 14 laboratories from 11 countries. The participants measured the different track parameters and statistically evaluated the results, to determine the performance of their system. The statistical analysis of results showed high deviations from the mean values in many cases. As the conclusion of the intercomparison recommendations were given to fulfill those requirements ...

  2. Accounting for demand failures in Markovian analyses

    Energy Technology Data Exchange (ETDEWEB)

    Wood, A.P.

    1980-01-03

    Reliability has become a fundamental concern in the development of nuclear power plants. The use of Markov Analysis in reliability evaluations is progressing quickly since it offers methods for dealing with repair considerations, common cause failures, time-dependent failure rates, cyclic failures, and availability calculations. A Markov process is a stochastic or time-dependent process allowing time-dependent failure processes to be modelled easily. In redundant safety systems, however, there are often passive system components whose failure to start on demand is higher than their probability of failure during the time for which the safety system must function. It may be impossible to model this failure process as a system with standby failure rates because the actual failure may be caused by the demand itself. This paper deals with a method for extending Markov Analyses to include demand failures.

  3. Accurate renormalization group analyses in neutrino sector

    Energy Technology Data Exchange (ETDEWEB)

    Haba, Naoyuki [Graduate School of Science and Engineering, Shimane University, Matsue 690-8504 (Japan); Kaneta, Kunio [Kavli IPMU (WPI), The University of Tokyo, Kashiwa, Chiba 277-8568 (Japan); Takahashi, Ryo [Graduate School of Science and Engineering, Shimane University, Matsue 690-8504 (Japan); Yamaguchi, Yuya [Department of Physics, Faculty of Science, Hokkaido University, Sapporo 060-0810 (Japan)

    2014-08-15

    We investigate accurate renormalization group analyses in neutrino sector between ν-oscillation and seesaw energy scales. We consider decoupling effects of top quark and Higgs boson on the renormalization group equations of light neutrino mass matrix. Since the decoupling effects are given in the standard model scale and independent of high energy physics, our method can basically apply to any models beyond the standard model. We find that the decoupling effects of Higgs boson are negligible, while those of top quark are not. Particularly, the decoupling effects of top quark affect neutrino mass eigenvalues, which are important for analyzing predictions such as mass squared differences and neutrinoless double beta decay in an underlying theory existing at high energy scale.

  4. Communication analyses of plant operator crews

    International Nuclear Information System (INIS)

    Elucidation of crew communication aspects is required to improve the man-man interface which supports operators' diagnoses and decisions. Experiments to clarify operator performance under abnormal condition were evaluated by protocol analyses, interviews, etc. using a training simulator. We had the working hypothesis, based on experimental observations, that operator performance can be evaluated by analysis of crew communications. The following four approaches were tried to evaluate operator performance. (1) Crew performance was quantitatively evaluated by the number of tasks undertaken by an operator crew. (2) The group thinking process was clarified by cognition-communication flow. (3) The group response process was clarified by movement flow. (4) Quantitative indexes for evaluating crew performance were considered to be represented by the amount of information effectively exchanged among operators. (author)

  5. Digital analyses of cartometric Fruska Gora guidelines

    Directory of Open Access Journals (Sweden)

    Živković Dragica

    2013-01-01

    Full Text Available Modern geo morphological topography research have been using quantity statistic and cartographic methods for topographic relief features, mutual relief features, mutual connection analyses on the grounds of good quality numeric parameters etc. Topographic features are important for topographic activities are important for important natural activities. Important morphological characteristics are precisely at the angle of topography, hypsometry, and topography exposition and so on. Small yet unknown relief slants can deeply affect land configuration, hypsometry, topographic exposition etc. Expositions modify the light and heat of interconnected phenomena: soil and air temperature, soil disintegration, the length of vegetation period, the complexity of photosynthesis, the fruitfulness of agricultural crops, the height of snow limit etc. [Projekat Ministarstva nauke Republike Srbije, br. 176008 i br. III44006

  6. Risques naturels en montagne et analyse spatiale

    Directory of Open Access Journals (Sweden)

    Yannick Manche

    1999-06-01

    Full Text Available Le concept de risque repose sur deux notions :l'aléa, qui représente le phénomène physique par son amplitude et sa période retour ;la vulnérabilité, qui représente l'ensemble des biens et des personnes pouvant être touchés par un phénomène naturel.Le risque se définit alors comme le croisement de ces deux notions. Cette vision théorique permet de modéliser indépendamment les aléas et la vulnérabilité.Ce travail s'intéresse essentiellement à la prise en compte de la vulnérabilité dans la gestion des risques naturels. Son évaluation passe obligatoirement par une certaine analyse spatiale qui prend en compte l'occupation humaine et différentes échelles de l'utilisation de l'espace. Mais l'évaluation spatiale, que ce soit des biens et des personnes, ou des effets indirects se heurte à de nombreux problèmes. Il faut estimer l'importance de l'occupation de l'espace. Par ailleurs, le traitement des données implique des changements constants d'échelle pour passer des éléments ponctuels aux surfaces, ce que les systèmes d'information géographique ne gèrent pas parfaitement. La gestion des risques entraîne de fortes contraintes d'urbanisme, la prise en compte de la vulnérabilité permet de mieux comprendre et gérer les contraintes spatiales qu'impliquent les risques naturels. aléa, analyse spatiale, risques naturels, S.I.G., vulnérabilité

  7. The radiation analyses of ITER lower ports

    International Nuclear Information System (INIS)

    The ITER Vacuum Vessel has upper, equatorial, and lower ports used for equipment installation, diagnostics, heating and current drive systems, cryo-vacuum pumping, and access inside the vessel for maintenance. At the level of the divertor, the nine lower ports for remote handling, cryo-vacuum pumping and diagnostic are inclined downwards and toroidally located each every 40o. The cryopump port has additionally a branch to allocate a second cryopump. The ports, as openings in the Vacuum Vessel, permit radiation streaming out of the vessel which affects the heating in the components in the outer regions of the machine inside and outside the ports. Safety concerns are also raised with respect to the dose after shutdown at the cryostat behind the ports: in such zones the radiation dose level must be kept below the regulatory limit to allow personnel access for maintenance purposes. Neutronic analyses have been required to qualify the ITER project related to the lower ports. A 3-D model was used to take into account full details of the ports and the lower machine surroundings. MCNP version 5 1.40 has been used with the FENDL 2.1 nuclear data library. The ITER 40o model distributed by the ITER Organization was developed in the lower part to include the relevant details. The results of a first analysis, focused on cryopump system only, were recently published. In this paper more complete data on the cryopump port and analysis for the remote handling port and the diagnostic rack are presented; the results of both analyses give a complete map of the radiation loads in the outer divertor ports. Nuclear heating, dpa, tritium production, and dose rates after shutdown are provided and the implications for the design are discussed.

  8. The radiation analyses of ITER lower ports

    Energy Technology Data Exchange (ETDEWEB)

    Petrizzi, L., E-mail: petrizzi@frascati.enea.it [Associazione EURATOM-ENEA sulla Fusione, Via Enrico Fermi 45, 00044 Frascati, Rome (Italy); Brolatti, G. [Associazione EURATOM-ENEA sulla Fusione, Via Enrico Fermi 45, 00044 Frascati, Rome (Italy); Martin, A.; Loughlin, M. [ITER Organization, Cadarache, 13108 St Paul-lez-Durance (France); Moro, F.; Villari, R. [Associazione EURATOM-ENEA sulla Fusione, Via Enrico Fermi 45, 00044 Frascati, Rome (Italy)

    2010-12-15

    The ITER Vacuum Vessel has upper, equatorial, and lower ports used for equipment installation, diagnostics, heating and current drive systems, cryo-vacuum pumping, and access inside the vessel for maintenance. At the level of the divertor, the nine lower ports for remote handling, cryo-vacuum pumping and diagnostic are inclined downwards and toroidally located each every 40{sup o}. The cryopump port has additionally a branch to allocate a second cryopump. The ports, as openings in the Vacuum Vessel, permit radiation streaming out of the vessel which affects the heating in the components in the outer regions of the machine inside and outside the ports. Safety concerns are also raised with respect to the dose after shutdown at the cryostat behind the ports: in such zones the radiation dose level must be kept below the regulatory limit to allow personnel access for maintenance purposes. Neutronic analyses have been required to qualify the ITER project related to the lower ports. A 3-D model was used to take into account full details of the ports and the lower machine surroundings. MCNP version 5 1.40 has been used with the FENDL 2.1 nuclear data library. The ITER 40{sup o} model distributed by the ITER Organization was developed in the lower part to include the relevant details. The results of a first analysis, focused on cryopump system only, were recently published. In this paper more complete data on the cryopump port and analysis for the remote handling port and the diagnostic rack are presented; the results of both analyses give a complete map of the radiation loads in the outer divertor ports. Nuclear heating, dpa, tritium production, and dose rates after shutdown are provided and the implications for the design are discussed.

  9. Local analyses of Planck maps with Minkowski functionals

    Science.gov (United States)

    Novaes, C. P.; Bernui, A.; Marques, G. A.; Ferreira, I. S.

    2016-09-01

    Minkowski functionals (MF) are excellent tools to investigate the statistical properties of the cosmic background radiation (CMB) maps. Between their notorious advantages is the possibility to use them efficiently in patches of the CMB sphere, which allow studies in masked skies, inclusive analyses of small sky regions. Then, possible deviations from Gaussianity are investigated by comparison with MF obtained from a set of Gaussian isotropic simulated CMB maps to which are applied the same cut-sky masks. These analyses are sensitive enough to detect contaminations of small intensity like primary and secondary CMB anisotropies. Our methodology uses the MF, widely employed to study non-Gaussianities in CMB data, and asserts Gaussian deviations only when all of them points out an exceptional χ2 value, at more than 2.2σ confidence level, in a given sky patch. Following this rigorous procedure, we find 13 regions in the foreground-cleaned Planck maps that evince such high levels of non-Gaussian deviations. According to our results, these non-Gaussian contributions show signatures that can be associated to the presence of hot or cold spots in such regions. Moreover, some of these non-Gaussian deviations signals suggest the presence of foreground residuals in those regions located near the Galactic plane. Additionally, we confirm that most of the regions revealed in our analyses, but not all, have been recently reported in studies done by the Planck collaboration. Furthermore, we also investigate whether these non-Gaussian deviations can be possibly sourced by systematics, like inhomogeneous noise and beam effect in the released Planck data, or perhaps due to residual Galactic foregrounds.

  10. Identidade molecular dos fitoplasmas associados aos enfezamentos do tomateiro e da berinjela com base na análise do gene 16S rDNA Molecular identity of the phytoplasma associated to stunting of tomato and eggplant on the basis of analyses of the 16S rDNA

    Directory of Open Access Journals (Sweden)

    Ana Paula de Oliveira Amaral Mello

    2007-09-01

    Full Text Available Doenças de hortaliças de ocorrência no território brasileiro e em outras áreas do mundo têm sido associadas a diversos fitoplasmas. Na região de Piracicaba-SP e Bragança Paulista-SP, em plantas de tomate e berinjela foram observados sintomas típicos de enfezamento caracterizados por porte reduzido, clorose foliar, superbrotamento de ramos, desenvolvimento anormal do cálice, encurtamento de entre-nós, redução no tamanho de folhas, flores e frutos. Através de duplo PCR, utilizando os iniciadores R16 mF1/mR2 e R16 F2n/R2, fragmentos de DNA de 1,2 kb foram amplificados de amostras sintomáticas, demonstrando a presença de fitoplasma nos tecidos das plantas. O uso de iniciadores específicos demonstrou que estes fitoplasmas eram afiliados ao grupo 16SrIII. Análises de RFLP, usando as enzimas de restrição AluI, HpaII, KpnI, MboI, MseI e RsaI confirmaram que os fitoplasmas detectados eram representantes do grupo 16SrIII. Os fragmentos de DNA amplificados foram clonados em Escherichia coli, sequenciados e comparados, por homologia de seqüência, entre si e com outros fitoplasmas do grupo 16SrIII. Um índice de similaridade de seqüência acima de 95% foi encontrado quando seqüências dos fitoplasmas detectados em tomate e berinjela foram comparadas com aquelas de outros representantes do grupo 16SrIII. Um índice de 98-99% foi obtido quando seqüências dos fitoplasmas encontrados em tomate e berinjela foram comparadas entre si. Estes resultados evidenciaram que o enfezamento do tomateiro e da berinjela podem estar associados a um mesmo fitoplasma, com base na análise de seqüências do gene do 16S rDNA.Vegetable diseases occurring in the Brazilian territory and around the world have been associated with various phytoplasmas. In the region of Piracicaba-SP and Bragança-SP, in eggplant and tomato plants typical symptoms of stunting characterized by reduced canopy, leaf yellowing, proliferation of shoots, calix malformation

  11. 120例Ⅰ型自身免疫性肝炎临床特征与疗效相关因素分析%Analyses of clinical features and associated factors on curative effect in type 1 autoimmune hepatitis with 120 cases

    Institute of Scientific and Technical Information of China (English)

    汪嘉莉; 姚云清

    2012-01-01

    ,TBIL,AST,immunoglobulin G(IgG) and clinical symptoms were associated with the prognosis of AIH-1. Conclusion The clinical features is significantly important in the early diagnosis for AIH-1. ALB,TBIL,AST,IgG and clinical symptoms might be associated with the prognosis of AIH-1. Early diagnosis and specific treatment might be of benefit for better prognosis.

  12. Sensitivity analyses for parametric causal mediation effect estimation.

    Science.gov (United States)

    Albert, Jeffrey M; Wang, Wei

    2015-04-01

    Causal mediation analysis uses a potential outcomes framework to estimate the direct effect of an exposure on an outcome and its indirect effect through an intermediate variable (or mediator). Causal interpretations of these effects typically rely on sequential ignorability. Because this assumption is not empirically testable, it is important to conduct sensitivity analyses. Sensitivity analyses so far offered for this situation have either focused on the case where the outcome follows a linear model or involve nonparametric or semiparametric models. We propose alternative approaches that are suitable for responses following generalized linear models. The first approach uses a Gaussian copula model involving latent versions of the mediator and the final outcome. The second approach uses a so-called hybrid causal-observational model that extends the association model for the final outcome, providing a novel sensitivity parameter. These models, while still assuming a randomized exposure, allow for unobserved (as well as observed) mediator-outcome confounders that are not affected by exposure. The methods are applied to data from a study of the effect of mother education on dental caries in adolescence.

  13. Preparation of environmental analyses for synfuel and unconventional gas technologies

    Energy Technology Data Exchange (ETDEWEB)

    Reed, R.M. (ed.)

    1982-09-01

    Government agencies that offer financial incentives to stimulate the commercialization of synfuel and unconventional gas technologies usually require an analysis of environmental impacts resulting from proposed projects. This report reviews potentially significant environmental issues associated with a selection of these technologies and presents guidance for developing information and preparing analyses to address these issues. The technologies considered are western oil shale, tar sand, coal liquefaction and gasification, peat, unconventional gas (western tight gas sands, eastern Devonian gas shales, methane from coal seams, and methane from geopressured aquifers), and fuel ethanol. Potentially significant issues are discussed under the general categories of land use, air quality, water use, water quality, biota, solid waste disposal, socioeconomics, and health and safety. The guidance provided in this report can be applied to preparation and/or review of proposals, environmental reports, environmental assessments, environmental impact statements, and other types of environmental analyses. The amount of detail required for any issue discussed must, by necessity, be determined on a case-by-case basis.

  14. Whole-Genome Analyses of lung function, height and smoking

    DEFF Research Database (Denmark)

    Janss, Luc; Sigsgaard, Torben; Sorensen, Daniel

    2014-01-01

    quantify the relative contributions of genomic and environmental factors to the relationship between FEV1 and height. Smoking status was analysed using a probit random regression model and a second goal of the study was to estimate the genomic heritability of smoking status. Estimates of genomic...... heritabilities for height and FEV1 are equal to 0.47 and to 0.30, respectively. The estimates of the genomic and environmental correlations between height and FEV1 are 0.78 and 0.34, respectively. The posterior mean of the genomic heritability of smoking status is equal to 0.14 and provides evidence for the...... presence of genetic factors associated with the trait. Under the data augmentation strategy introduced, the joint posterior distribution of FEV1 and height factorises into two independent posterior distributions. This simplifies programming and results in excellent numerical behaviour. The approach can be...

  15. Classification accuracy analyses using Shannon’s Entropy

    Directory of Open Access Journals (Sweden)

    Shashi Poonam Indwar

    2014-11-01

    Full Text Available There are many methods for determining the Classification Accuracy. In this paper significance of Entropy of training signatures in Classification has been shown. Entropy of training signatures of the raw digital image represents the heterogeneity of the brightness values of the pixels in different bands. This implies that an image comprising a homogeneous lu/lc category will be associated with nearly the same reflectance values that would result in the occurrence of a very low entropy value. On the other hand an image characterized by the occurrence of diverse lu/lc categories will consist of largely differing reflectance values due to which the entropy of such image would be relatively high. This concept leads to analyses of classification accuracy. Although Entropy has been used many times in RS and GIS but its use in determination of classification accuracy is new approach.

  16. Airbags to Martian Landers: Analyses at Sandia National Laboratories

    Energy Technology Data Exchange (ETDEWEB)

    Gwinn, K.W.

    1994-03-01

    A new direction for the national laboratories is to assist US business with research and development, primarily through cooperative research and development agreements (CRADAs). Technology transfer to the private sector has been very successful as over 200 CRADAs are in place at Sandia. Because of these cooperative efforts, technology has evolved into some new areas not commonly associated with the former mission of the national laboratories. An example of this is the analysis of fabric structures. Explicit analyses and expertise in constructing parachutes led to the development of a next generation automobile airbag; which led to the construction, testing, and analysis of the Jet Propulsion Laboratory Mars Environmental Survey Lander; and finally led to the development of CAD based custom garment designs using 3D scanned images of the human body. The structural analysis of these fabric structures is described as well as a more traditional example Sandia with the test/analysis correlation of the impact of a weapon container.

  17. Spent fuel shipping costs for transportation logistics analyses

    International Nuclear Information System (INIS)

    Logistics analyses supplied to the nuclear waste management programs of the U.S. Department of Energy through the Transportation Technology Center (TTC) at Sandia National Laboratories are used to predict nuclear waste material logistics, transportation packaging demands, shipping and receiving rates and transportation-related costs for alternative strategies. This study is an in-depth analysis of the problems and contingencies associated with the costs of shipping irradiated reactor fuel. These costs are extremely variable however, and have changed frequently (sometimes monthly) during the past few years due to changes in capital, fuel, and labor costs. All costs and charges reported in this study are based on January 1982 data using existing transport cask systems and should be used as relative indices only. Actual shipping costs would be negotiable for each origin-destination combination

  18. Analyses of hypomethylated oil palm gene space.

    Science.gov (United States)

    Low, Eng-Ti L; Rosli, Rozana; Jayanthi, Nagappan; Mohd-Amin, Ab Halim; Azizi, Norazah; Chan, Kuang-Lim; Maqbool, Nauman J; Maclean, Paul; Brauning, Rudi; McCulloch, Alan; Moraga, Roger; Ong-Abdullah, Meilina; Singh, Rajinder

    2014-01-01

    Demand for palm oil has been increasing by an average of ∼8% the past decade and currently accounts for about 59% of the world's vegetable oil market. This drives the need to increase palm oil production. Nevertheless, due to the increasing need for sustainable production, it is imperative to increase productivity rather than the area cultivated. Studies on the oil palm genome are essential to help identify genes or markers that are associated with important processes or traits, such as flowering, yield and disease resistance. To achieve this, 294,115 and 150,744 sequences from the hypomethylated or gene-rich regions of Elaeis guineensis and E. oleifera genome were sequenced and assembled into contigs. An additional 16,427 shot-gun sequences and 176 bacterial artificial chromosomes (BAC) were also generated to check the quality of libraries constructed. Comparison of these sequences revealed that although the methylation-filtered libraries were sequenced at low coverage, they still tagged at least 66% of the RefSeq supported genes in the BAC and had a filtration power of at least 2.0. A total 33,752 microsatellites and 40,820 high-quality single nucleotide polymorphism (SNP) markers were identified. These represent the most comprehensive collection of microsatellites and SNPs to date and would be an important resource for genetic mapping and association studies. The gene models predicted from the assembled contigs were mined for genes of interest, and 242, 65 and 14 oil palm transcription factors, resistance genes and miRNAs were identified respectively. Examples of the transcriptional factors tagged include those associated with floral development and tissue culture, such as homeodomain proteins, MADS, Squamosa and Apetala2. The E. guineensis and E. oleifera hypomethylated sequences provide an important resource to understand the molecular mechanisms associated with important agronomic traits in oil palm. PMID:24497974

  19. Analyses of hypomethylated oil palm gene space.

    Directory of Open Access Journals (Sweden)

    Eng-Ti L Low

    Full Text Available Demand for palm oil has been increasing by an average of ∼8% the past decade and currently accounts for about 59% of the world's vegetable oil market. This drives the need to increase palm oil production. Nevertheless, due to the increasing need for sustainable production, it is imperative to increase productivity rather than the area cultivated. Studies on the oil palm genome are essential to help identify genes or markers that are associated with important processes or traits, such as flowering, yield and disease resistance. To achieve this, 294,115 and 150,744 sequences from the hypomethylated or gene-rich regions of Elaeis guineensis and E. oleifera genome were sequenced and assembled into contigs. An additional 16,427 shot-gun sequences and 176 bacterial artificial chromosomes (BAC were also generated to check the quality of libraries constructed. Comparison of these sequences revealed that although the methylation-filtered libraries were sequenced at low coverage, they still tagged at least 66% of the RefSeq supported genes in the BAC and had a filtration power of at least 2.0. A total 33,752 microsatellites and 40,820 high-quality single nucleotide polymorphism (SNP markers were identified. These represent the most comprehensive collection of microsatellites and SNPs to date and would be an important resource for genetic mapping and association studies. The gene models predicted from the assembled contigs were mined for genes of interest, and 242, 65 and 14 oil palm transcription factors, resistance genes and miRNAs were identified respectively. Examples of the transcriptional factors tagged include those associated with floral development and tissue culture, such as homeodomain proteins, MADS, Squamosa and Apetala2. The E. guineensis and E. oleifera hypomethylated sequences provide an important resource to understand the molecular mechanisms associated with important agronomic traits in oil palm.

  20. Modelling and Analysing Risk at Organizational Level

    OpenAIRE

    Asnar, Yudistira; Giorgini, Paolo

    2006-01-01

    Modeling and analyzing risk is one of the most critical activity in system engineering and approaches like Fault Tree Analysis, Event Tree Analysis, Failure Modes and Criticality Analysis have been proposed in literature. All these approaches focus on the system-to-be without considering the impact of the associated risks to the organization where the system will operate. On the other hand, the tendency is more and more to consider software development as a part of organizational development....

  1. Analyses of Hypomethylated Oil Palm Gene Space

    OpenAIRE

    Low, Eng-Ti L; Rozana Rosli; Nagappan Jayanthi; Ab Halim Mohd-Amin; Norazah Azizi; Kuang-Lim Chan; Nauman J Maqbool; Paul Maclean; Rudi Brauning; Alan McCulloch; Roger Moraga; Meilina Ong-Abdullah; Rajinder Singh

    2014-01-01

    Demand for palm oil has been increasing by an average of ∼8% the past decade and currently accounts for about 59% of the world's vegetable oil market. This drives the need to increase palm oil production. Nevertheless, due to the increasing need for sustainable production, it is imperative to increase productivity rather than the area cultivated. Studies on the oil palm genome are essential to help identify genes or markers that are associated with important processes or traits, such as flowe...

  2. Efficient ALL vs. ALL collision risk analyses

    Science.gov (United States)

    Escobar, D.; Paskowitz, M.; Agueda, A.; Garcia, G.; Molina, M.

    2011-09-01

    In recent years, the space debris has gained a lot of attention due to the increasing amount of uncontrolled man-made objects orbiting the Earth. This population poses a significant and constantly growing thread to operational satellites. In order to face this thread in an independent manner, ESA has launched an initiative for the development of a European SSA System where GMV is participating via several activities. Apart from those activities financed by ESA, GMV has developed closeap, a tool for efficient conjunction assessment and collision probability prediction. ESÁs NAPEOS has been selected as computational engine and numerical propagator to be used in the tool, which can be considered as an add-on to the standard NAPEOS package. closeap makes use of the same orbit computation, conjunction assessment and collision risk algorithms implemented in CRASS, but at the same time both systems are completely independent. Moreover, the implementation in closeap has been validated against CRASS with excellent results. This paper describes the performance improvements implemented in closeap at algorithm level to ensure that the most time demanding scenarios (e.g., all catalogued objects are analysed against each other - all vs. all scenarios -) can be analysed in a reasonable amount of time with commercial-off-the-shelf hardware. However, the amount of space debris increases steadily due to the human activities. Thus, the number of objects involved in a full collision assessment is expected to increase notably and, consequently, the computational cost, which scales as the square of the number of objects, will increase as well. Additionally, orbit propagation algorithms that are computationally expensive might be needed to predict more accurately the trajectories of the space debris. In order to cope with such computational needs, the next natural step in the development of collision assessment tools is the use of parallelization techniques. In this paper we investigate

  3. Hungarian approach to LOCA analyses for SARs

    International Nuclear Information System (INIS)

    The Hungarian AGNES project in the period of 1992-94 was performed with the aim to reassess the safety of the Paks NPP using state-of-the-art techniques. The project comprised - among others - a complete design basis accident (DBA) analysis. Major part of the thermal-hydraulic analyses has been performed by the RELAP5/mod2.5/V251 code version with conservative approach. In the medium size LOCA calculations and the PTS studies the six reactor cooling loops of the WWER-440/213 system were modelled by three loops (a single, a double and a triple loop). In the further developed version of the input model used in small break LOCA and other DBA analyses the six loops were modelled separately. The nodalisation schemes of the reactor vessel and the pressurizer, moreover the single primary loops are identical in the two input models. For the six-loop inputs model the trip cards, general tables and control variables are generated by using a RELAP5 object-oriented pre-processing interactive code, the TROPIC 4.0 code received from TRACTEBEL Belgium. The six-loop input model for WWER-440/V213 system was verified by the data of two operational transients measured in Paks NPP. The analysis of large break LOCAs, where the combined simultaneous upper plenum and downcomer injection results in a rather complicated process during reflooding phase, was carried out by using the ATHLET mod 1.1 Cycle code version (developed by GRS) in the framework of a bilateral German-Hungarian cooperation agreement using two-loop (1+5) input model. Later on in our safety analysis activities the application of best estimate methodology gained ground. In the last years AEKI in framework of different projects as US CAMP activity, EU PHARE and 5th Framework Programmes, as well as national projects to support the plant operation performed also many cases of LOCA analysis including primary to secondary leakages, feedwater and steam line breaks. These can be the preparation for a new DBA Analysis project

  4. Trend Analyses of Nitrate in Danish Groundwater

    Science.gov (United States)

    Hansen, B.; Thorling, L.; Dalgaard, T.; Erlandsen, M.

    2012-04-01

    This presentation assesses the long-term development in the oxic groundwater nitrate concentration and nitrogen (N) loss due to intensive farming in Denmark. Firstly, up to 20-year time-series from the national groundwater monitoring network enable a statistically systematic analysis of distribution, trends and trend reversals in the groundwater nitrate concentration. Secondly, knowledge about the N surplus in Danish agriculture since 1950 is used as an indicator of the potential loss of N. Thirdly, groundwater recharge CFC (Chlorofluorocarbon) age determination allows linking of the first two dataset. The development in the nitrate concentration of oxic groundwater clearly mirrors the development in the national agricultural N surplus, and a corresponding trend reversal is found in groundwater. Regulation and technical improvements in the intensive farming in Denmark have succeeded in decreasing the N surplus by 40% since the mid 1980s while at the same time maintaining crop yields and increasing the animal production of especially pigs. Trend analyses prove that the youngest (0-15 years old) oxic groundwater shows more pronounced significant downward nitrate trends (44%) than the oldest (25-50 years old) oxic groundwater (9%). This amounts to clear evidence of the effect of reduced nitrate leaching on groundwater nitrate concentrations in Denmark. Are the Danish groundwater monitoring strategy obtimal for detection of nitrate trends? Will the nitrate concentrations in Danish groundwater continue to decrease or are the Danish nitrate concentration levels now appropriate according to the Water Framework Directive?

  5. Network-Based and Binless Frequency Analyses.

    Directory of Open Access Journals (Sweden)

    Sybil Derrible

    Full Text Available We introduce and develop a new network-based and binless methodology to perform frequency analyses and produce histograms. In contrast with traditional frequency analysis techniques that use fixed intervals to bin values, we place a range ±ζ around each individual value in a data set and count the number of values within that range, which allows us to compare every single value of a data set with one another. In essence, the methodology is identical to the construction of a network, where two values are connected if they lie within a given a range (±ζ. The value with the highest degree (i.e., most connections is therefore assimilated to the mode of the distribution. To select an optimal range, we look at the stability of the proportion of nodes in the largest cluster. The methodology is validated by sampling 12 typical distributions, and it is applied to a number of real-world data sets with both spatial and temporal components. The methodology can be applied to any data set and provides a robust means to uncover meaningful patterns and trends. A free python script and a tutorial are also made available to facilitate the application of the method.

  6. Consumption patterns and perception analyses of hangwa.

    Science.gov (United States)

    Kwock, Chang Geun; Lee, Min A; Park, So Hyun

    2012-03-01

    Hangwa is a traditional food, corresponding to the current consumption trend, in need of marketing strategies to extend its consumption. Therefore, the purpose of this study was to analyze consumers' consumption patterns and perception of Hangwa to increase consumption in the market. A questionnaire was sent to 250 consumers by e-mail from Oct 8∼23, 2009 and the data from 231 persons were analyzed in this study. Statistical, descriptive, paired samples t-test, and importance-performance analyses were conducted using SPSS WIN 17.0. According to the results, Hangwa was purchased mainly 'for present' (39.8%) and the main reasons for buying it were 'traditional image' (33.3%) and 'taste' (22.5%). When importance and performance of attributes considered in purchasing Hangwa were evaluated, performance was assessed to be lower than importance for all attributes. The attributes in the first quadrant with a high importance and a high performance were 'a sanitary process', 'a rigorous quality mark' and 'taste', which were related with quality of the products. In addition, those with a high importance but a low performance were 'popularization through advertisement', 'promotion through mass media', 'conversion of thought on traditional foods', 'a reasonable price' and 'a wide range of price'. In conclusion, Hangwa manufacturers need to diversify products and extend the expiration date based on technologies to promote its consumption. In terms of price, Hangwa should become more available by lowering the price barrier for consumers who are sensitive to price. PMID:24471065

  7. Analyses of demand response in Denmark

    International Nuclear Information System (INIS)

    Due to characteristics of the power system, costs of producing electricity vary considerably over short time intervals. Yet, many consumers do not experience corresponding variations in the price they pay for consuming electricity. The topic of this report is: are consumers willing and able to respond to short-term variations in electricity prices, and if so, what is the social benefit of consumers doing so? Taking Denmark and the Nord Pool market as a case, the report focuses on what is known as short-term consumer flexibility or demand response in the electricity market. With focus on market efficiency, efficient allocation of resources and security of supply, the report describes demand response from a micro-economic perspective and provides empirical observations and case studies. The report aims at evaluating benefits from demand response. However, only elements contributing to an overall value are presented. In addition, the analyses are limited to benefits for society, and costs of obtaining demand response are not considered. (au)

  8. Evaluation of the Olympus AU-510 analyser.

    Science.gov (United States)

    Farré, C; Velasco, J; Ramón, F

    1991-01-01

    The selective multitest Olympus AU-510 analyser was evaluated according to the recommendations of the Comision de Instrumentacion de la Sociedad Española de Quimica Clinica and the European Committee for Clinical Laboratory Standards. The evaluation was carried out in two stages: an examination of the analytical units and then an evaluation in routine work conditions. The operational characteristics of the system were also studied.THE FIRST STAGE INCLUDED A PHOTOMETRIC STUDY: dependent on the absorbance, the inaccuracy varies between +0.5% to -0.6% at 405 nm and from -5.6% to 10.6% at 340 nm; the imprecision ranges between -0.22% and 0.56% at 405 nm and between 0.09% and 2.74% at 340 nm. Linearity was acceptable, apart from a very low absorbance for NADH at 340 nm; and the imprecision of the serum sample pipetter was satisfactory.TWELVE SERUM ANALYTES WERE STUDIED UNDER ROUTINE CONDITIONS: glucose, urea urate, cholesterol, triglycerides, total bilirubin, creatinine, phosphate, iron, aspartate aminotransferase, alanine aminotransferase and gamma-glutamyl transferase.The within-run imprecision (CV%) ranged from 0.67% for phosphate to 2.89% for iron and the between-run imprecision from 0.97% for total bilirubin to 7.06% for iron. There was no carryover in a study of the serum sample pipetter. Carry-over studies with the reagent and sample pipetters shows some cross contamination in the iron assay.

  9. Parametric analyses of fusion-fission systems

    International Nuclear Information System (INIS)

    After a short review of the nuclear reactions relevant to fusion-fission systems the various types of blankets and characteristic model cases are presented. The fusion-fission system is modelled by its energy flow diagram. The system components and the system as a whole are characterized by 'component parameters' and 'system parameters' all of which are energy ratios. A cost estimate is given for the net energy delivered by the system, and a collection of formulas for the various energies flowing in the system in terms of the thermal energy delivered by the fusion part is presented. For sensitivity analysis four reference cases are defined which combine two plasma confinement schemes (mirror and tokamak) with two fissile fuel cycles (thorium-uranium and uranium-plutonium). The sensitivity of the critical plasma energy multiplication, of the circulating energy fraction, and of the energy cost with respect to changes of the component parameters is analysed. For the mirror case only superconducting magnets are considered, whereas two tokimak cases take into account both superconducting and normal-conducting coils. A section presenting relations between the plasma energy multiplication and the confinement parameter n tausub(E) of driven tokamak plasmas is added for reference. The conclusions summarize the results which could be obtained within the framework of energy balances, cost estimates and their parametric sensitivities. This is supplemented by listing those issues which lie beyond this scope but have to be taken into account when assessments of fusion-fission systems are made. (orig.)

  10. WIND SPEED AND ENERGY POTENTIAL ANALYSES

    Directory of Open Access Journals (Sweden)

    A. TOKGÖZLÜ

    2013-01-01

    Full Text Available This paper provides a case study on application of wavelet techniques to analyze wind speed and energy (renewable and environmental friendly energy. Solar and wind are main sources of energy that allows farmers to have the potential for transferring kinetic energy captured by the wind mill for pumping water, drying crops, heating systems of green houses, rural electrification's or cooking. Larger wind turbines (over 1 MW can pump enough water for small-scale irrigation. This study tried to initiate data gathering process for wavelet analyses, different scale effects and their role on wind speed and direction variations. The wind data gathering system is mounted at latitudes: 37° 50" N; longitude 30° 33" E and height: 1200 m above mean sea level at a hill near Süleyman Demirel University campus. 10 minutes average values of two levels wind speed and direction (10m and 30m above ground level have been recorded by a data logger between July 2001 and February 2002. Wind speed values changed between the range of 0 m/s and 54 m/s. Annual mean speed value is 4.5 m/s at 10 m ground level. Prevalent wind

  11. Comparative analyses of bidirectional promoters in vertebrates

    Directory of Open Access Journals (Sweden)

    Taylor James

    2008-05-01

    Full Text Available Abstract Background Orthologous genes with deep phylogenetic histories are likely to retain similar regulatory features. In this report we utilize orthology assignments for pairs of genes co-regulated by bidirectional promoters to map the ancestral history of the promoter regions. Results Our mapping of bidirectional promoters from humans to fish shows that many such promoters emerged after the divergence of chickens and fish. Furthermore, annotations of promoters in deep phylogenies enable detection of missing data or assembly problems present in higher vertebrates. The functional importance of bidirectional promoters is indicated by selective pressure to maintain the arrangement of genes regulated by the promoter over long evolutionary time spans. Characteristics unique to bidirectional promoters are further elucidated using a technique for unsupervised classification, known as ESPERR. Conclusion Results of these analyses will aid in our understanding of the evolution of bidirectional promoters, including whether the regulation of two genes evolved as a consequence of their proximity or if function dictated their co-regulation.

  12. Field analyses of tritium at environmental levels

    Energy Technology Data Exchange (ETDEWEB)

    Hofstetter, K.J.; Cable, P.R.; Beals, D.M

    1999-02-11

    An automated, remote system to analyze tritium in aqueous solutions at environmental levels has been tested and has demonstrated laboratory quality tritium analysis capability in near real time. The field deployable tritium analysis system (FDTAS) consists of a novel multi-port autosampler, an on-line water purification system, and a prototype stop-flow liquid scintillation counter (LSC) which can be remotely controlled for unmanned operation. Backgrounds of {approx}1.5 counts/min in the tritium channel are routinely measured with a tritium detection efficiency of {approx}25% for the custom 11 ml cell. A detection limit of <0.3 pCi/ml has been achieved for 100-min counts using a 50 : 50 mixture of sample and cocktail. To assess the long-term performance characteristics of the FDTAS, a composite sampler was installed on the Savannah River, downstream of the Savannah River Site, and collected repetitive 12-hour composite samples over a 14 day period. The samples were analyzed using the FDTAS and in the laboratory using a standard bench-top LSC. The results of the tritium analyses by the FDTAS and by the laboratory LSC were consistent for comparable counting times at the typical river tritium background levels ({approx}1 pCi/ml)

  13. ANALYSES AND INFLUENCES OF GLAZED BUILDING ENVELOPES

    Directory of Open Access Journals (Sweden)

    Sabina Jordan

    2011-01-01

    Full Text Available The article presents the results of an analytical study of the functioning of glazing at two different yet interacting levels: at the level of the building as a whole, and at that of glazing as a building element. At the building level, analyses were performed on a sample of high-rise business buildings in Slovenia, where the glazing"s share of the building envelope was calculated, and estimates of the proportion of shade provided by external blinds were made. It is shown that, especially in the case of modern buildings with large proportions of glazing and buildings with no shading devices, careful glazing design is needed, together with a sound knowledge of energy performance. In the second part of the article, the energy balance values relating to selected types of glazing are presented, including solar control glazing. The paper demonstrates the need for a holistic energy approach to glazing problems, as well as how different types of glazing can be methodically compared, thus improving the design of sustainability-orientated buildings.

  14. Statistical analyses of extreme food habits

    International Nuclear Information System (INIS)

    This report is a summary of the results of the project ''Statistical analyses of extreme food habits'', which was ordered from the National Office for Radiation Protection as a contribution to the amendment of the ''General Administrative Regulation to paragraph 45 of the Decree on Radiation Protection: determination of the radiation exposition by emission of radioactive substances from facilities of nuclear technology''. Its aim is to show if the calculation of the radiation ingested by 95% of the population by food intake, like it is planned in a provisional draft, overestimates the true exposure. If such an overestimation exists, the dimension of it should be determined. It was possible to prove the existence of this overestimation but its dimension could only roughly be estimated. To identify the real extent of it, it is necessary to include the specific activities of the nuclides, which were not available for this investigation. In addition to this the report shows how the amounts of food consumption of different groups of foods influence each other and which connections between these amounts should be taken into account, in order to estimate the radiation exposition as precise as possible. (orig.)

  15. Kinematic gait analyses in healthy Golden Retrievers

    Directory of Open Access Journals (Sweden)

    Gabriela C.A. Silva

    2014-12-01

    Full Text Available Kinematic analysis relates to the relative movement between rigid bodies and finds application in gait analysis and other body movements, interpretation of their data when there is change, determines the choice of treatment to be instituted. The objective of this study was to standardize the march of Dog Golden Retriever Healthy to assist in the diagnosis and treatment of musculoskeletal disorders. We used a kinematic analysis system to analyse the gait of seven dogs Golden Retriever, female, aged between 2 and 4 years, weighing 21.5 to 28 kg, clinically normal. Flexion and extension were described for shoulder, elbow, carpal, hip, femorotibialis and tarsal joints. The gait was characterized lateral and had accepted hypothesis of normality for all variables, except for the stance of hip and elbow, considering a confidence level of 95%, significance level α = 0.05. Variations have been attributed to displacement of the stripes during movement and the duplicated number of reviews. The kinematic analysis proved to be a consistent method of evaluation of the movement during canine gait and the data can be used in the diagnosis and evaluation of canine gait in comparison to other studies and treatment of dogs with musculoskeletal disorders.

  16. Reliability Analyses of Groundwater Pollutant Transport

    Energy Technology Data Exchange (ETDEWEB)

    Dimakis, Panagiotis

    1997-12-31

    This thesis develops a probabilistic finite element model for the analysis of groundwater pollution problems. Two computer codes were developed, (1) one using finite element technique to solve the two-dimensional steady state equations of groundwater flow and pollution transport, and (2) a first order reliability method code that can do a probabilistic analysis of any given analytical or numerical equation. The two codes were connected into one model, PAGAP (Probability Analysis of Groundwater And Pollution). PAGAP can be used to obtain (1) the probability that the concentration at a given point at a given time will exceed a specified value, (2) the probability that the maximum concentration at a given point will exceed a specified value and (3) the probability that the residence time at a given point will exceed a specified period. PAGAP could be used as a tool for assessment purposes and risk analyses, for instance the assessment of the efficiency of a proposed remediation technique or to study the effects of parameter distribution for a given problem (sensitivity study). The model has been applied to study the greatest self sustained, precipitation controlled aquifer in North Europe, which underlies Oslo`s new major airport. 92 refs., 187 figs., 26 tabs.

  17. PRECLOSURE CONSEQUENCE ANALYSES FOR LICENSE APPLICATION

    Energy Technology Data Exchange (ETDEWEB)

    S. Tsai

    2005-01-12

    Radiological consequence analyses are performed for potential releases from normal operations in surface and subsurface facilities and from Category 1 and Category 2 event sequences during the preclosure period. Surface releases from normal repository operations are primarily from radionuclides released from opening a transportation cask during dry transfer operations of spent nuclear fuel (SNF) in Dry Transfer Facility 1 (DTF 1), Dry Transfer Facility 2 (DTF 2), the Canister Handling facility (CHF), or the Fuel Handling Facility (FHF). Subsurface releases from normal repository operations are from resuspension of waste package surface contamination and neutron activation of ventilated air and silica dust from host rock in the emplacement drifts. The purpose of this calculation is to demonstrate that the preclosure performance objectives, specified in 10 CFR 63.111(a) and 10 CFR 63.111(b), have been met for the proposed design and operations in the geologic repository operations area. Preclosure performance objectives are discussed in Section 6.2.3 and are summarized in Tables 1 and 2.

  18. COMT基因rs6267多态性与青少年期亲子亲合与冲突的关系:性别与父母教养行为的调节作用分析%Association between COMT Gene Rs6267 Polymorphism and Parent-Adolescent Cohesion and Conflict:the Analyses of the Moderating Effects of Gender and Parenting Behavior

    Institute of Scientific and Technical Information of China (English)

    王美萍; 张文新

    2014-01-01

    采用基因-环境设计,以208名初中生为被试,系统考察COMT基因rs6267多态性与青少年期亲子亲合与冲突的关系,以及性别与父母教养行为在其中的调节作用。结果显示 rs6267多态性对亲子关系无显著主效应,但其与亲子亲合、母子情绪冲突的关联模式在男女青少年群体中相反;rs6267多态性与父母积极教养行为对亲子关系无显著交互作用,但其与母亲消极教养行为对母子冲突具有交互作用趋势。%Parent-child relationship has been a longstanding theme of research in developmental psychology. Theories of socialization view parent-child relationship as a family environment which has a significant and profound effect on child development. Since 1990s, studies from qualitative behavior genetics adopting the twin-study design have demonstrated that family environment including parent-child relationship has both genetic and environmental underpinnings. With the advancement of molecular genetics in the last decade, investigations about the gene-environment interactions yielded meaningful findings that significantly updated and deepened the scientific understanding of the nature of parent-child relationship. However, existing research on gene-environment interplay in parent-child relationship has mainly focused on the role of 5-HTTLPR and DRD4 gene polymorphisms, the possible association between COMT gene rs6267 polymorphism and parent-child relationship remains to be examined. Besides, most of previously reported findings were obtained on mother-infant attachment. It remains to be seen whether parent-adolescent relationships also have significant genetic underpinning, and whether there are moderating effects of gender and parenting behavior, including positive and negative parenting behavior on the association between rs6267 polymorphism and parent-adolescent relationship. The present study aimed to extend the previous research by examining the association

  19. Analyse textuelle des discours: Niveaux ou plans d´analyse

    Directory of Open Access Journals (Sweden)

    Jean-Michel Adam

    2012-12-01

    Full Text Available L’article porte sur la théorie de l´Analyse Textuelle des Discours, à partir d´une reprisede la traduction brésilienne de La linguistique textuelle: introduction à l’analyse textuelle desdiscours (Cortez, 2008. L’ATD est pensée en fonction de trois observations préliminaires: lalinguistique textuelle est une des disciplines de l’analyse de discours, le texte est l’objet d’analysede l’ATD, et, dès qu’il y a texte, c’est-à-dire reconnaissance du fait qu’une suite d’énoncésforme un tout de communication, il y a effet de généricité, c’est-à-dire inscription de cette suited’énoncés dans une classe de discours. Le modèle théorique de l’ATD est éclairé par une reprisede son schéma 4, où sont représentés huit niveaux d’analyse. L´ATD est abordée sous l’angled’une double exigence – des raisons théoriques et des raisons méthodologiques et didactiquesqui conduisent à ces niveaux – et sont détaillées et illustrées les cinq plans ou niveaux d’analysetextuelle. Pour finir, des parties de l’oeuvre sont reprises et élargies, avec d’autres analyses où denouveaux aspcts théoriques sont détaillés.

  20. ASSOCIATION INFORMATION

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Beijing Charity Association Beijing Charity Association (BCA), a non-profit mass organization, is willing to serve Beijing’s lowincome people and promote local reforms and development, in a bid to construct a harmonious society.

  1. Poverty Suburbanization: Theoretical Insights and Empirical Analyses

    Directory of Open Access Journals (Sweden)

    Kenya L. Covington

    2015-04-01

    Full Text Available Today almost every major metropolitan area in the U.S. has experienced rising poverty at a rate that surpasses its urban core (Kneebone & Berube, 2013, p. 2. Poverty suburbanization has accelerated about 3.3 percentage points over the last decade. In this article, factors associated with the growing share of poor in suburbs in the 100 largest metropolitan areas were examined. The analysis sought to address the overarching question: what metropolitan factors are associated with poverty suburbanization? Poverty suburbanization growth rates and temporal changes in metropolitan level factors for 2000 and 2008 are highlighted. Change regression results reveal important macro level and within suburb effects illuminating recent changes in the spatial distribution of the poor. Positive changes in housing affordability appear to open up access to suburban neighborhoods, while metropolitan job decentralization and residential segregation have countervailing effects on the suburbanization of the poor. Findings from this paper suggest that it is appropriate to place the suburbanization of poverty in the contemporary period within an urban political economy framework of urban growth and change.

  2. Integrated Field Analyses of Thermal Springs

    Science.gov (United States)

    Shervais, K.; Young, B.; Ponce-Zepeda, M. M.; Rosove, S.

    2011-12-01

    A group of undergraduate researchers through the SURE internship offered by the Southern California Earthquake Center (SCEC) have examined thermal springs in southern Idaho, northern Utah as well as mud volcanoes in the Salton Sea, California. We used an integrated approach to estimate the setting and maximum temperature, including water chemistry, Ipad-based image and data-base management, microbiology, and gas analyses with a modified Giggenbach sampler.All springs were characterized using GISRoam (tmCogent3D). We are performing geothermometry calculations as well as comparisons with temperature gradient data on the results while also analyzing biological samples. Analyses include water temperature, pH, electrical conductivity, and TDS measured in the field. Each sample is sealed and chilled and delivered to a water lab within 12 hours.Temperatures are continuously monitored with the use of Solinst Levelogger Juniors. Through partnership with a local community college geology club, we receive results on a monthly basis and are able to process initial data earlier in order to evaluate data over a longer time span. The springs and mudpots contained microbial organisms which were analyzed using methods of single colony isolation, polymerase chain reaction, and DNA sequencing showing the impact of the organisms on the springs or vice versa. Soon we we will collect gas samples at sites that show signs of gas. This will be taken using a hybrid of the Giggenbach method and our own methods. Drawing gas samples has proven a challenge, however we devised a method to draw out gas samples utilizing the Giggenbach flask, transferring samples to glass blood sample tubes, replacing NaOH in the Giggenbach flask, and evacuating it in the field for multiple samples using a vacuum pump. We also use a floating platform devised to carry and lower a levelogger, to using an in-line fuel filter from a tractor in order to keep mud from contaminating the equipment.The use of raster

  3. Fracturing and brittleness index analyses of shales

    Science.gov (United States)

    Barnhoorn, Auke; Primarini, Mutia; Houben, Maartje

    2016-04-01

    The formation of a fracture network in rocks has a crucial control on the flow behaviour of fluids. In addition, an existing network of fractures , influences the propagation of new fractures during e.g. hydraulic fracturing or during a seismic event. Understanding of the type and characteristics of the fracture network that will be formed during e.g. hydraulic fracturing is thus crucial to better predict the outcome of a hydraulic fracturing job. For this, knowledge of the rock properties is crucial. The brittleness index is often used as a rock property that can be used to predict the fracturing behaviour of a rock for e.g. hydraulic fracturing of shales. Various terminologies of the brittleness index (BI1, BI2 and BI3) exist based on mineralogy, elastic constants and stress-strain behaviour (Jin et al., 2014, Jarvie et al., 2007 and Holt et al., 2011). A maximum brittleness index of 1 predicts very good and efficient fracturing behaviour while a minimum brittleness index of 0 predicts a much more ductile shale behaviour. Here, we have performed systematic petrophysical, acoustic and geomechanical analyses on a set of shale samples from Whitby (UK) and we have determined the three different brittleness indices on each sample by performing all the analyses on each of the samples. We show that each of the three brittleness indices are very different for the same sample and as such it can be concluded that the brittleness index is not a good predictor of the fracturing behaviour of shales. The brittleness index based on the acoustic data (BI1) all lie around values of 0.5, while the brittleness index based on the stress strain data (BI2) give an average brittleness index around 0.75, whereas the mineralogy brittleness index (BI3) predict values below 0.2. This shows that by using different estimates of the brittleness index different decisions can be made for hydraulic fracturing. If we would rely on the mineralogy (BI3), the Whitby mudstone is not a suitable

  4. Pipeline for macro- and microarray analyses

    Directory of Open Access Journals (Sweden)

    R. Vicentini

    2007-05-01

    Full Text Available The pipeline for macro- and microarray analyses (PMmA is a set of scripts with a web interface developed to analyze DNA array data generated by array image quantification software. PMmA is designed for use with single- or double-color array data and to work as a pipeline in five classes (data format, normalization, data analysis, clustering, and array maps. It can also be used as a plugin in the BioArray Software Environment, an open-source database for array analysis, or used in a local version of the web service. All scripts in PMmA were developed in the PERL programming language and statistical analysis functions were implemented in the R statistical language. Consequently, our package is a platform-independent software. Our algorithms can correctly select almost 90% of the differentially expressed genes, showing a superior performance compared to other methods of analysis. The pipeline software has been applied to 1536 expressed sequence tags macroarray public data of sugarcane exposed to cold for 3 to 48 h. PMmA identified thirty cold-responsive genes previously unidentified in this public dataset. Fourteen genes were up-regulated, two had a variable expression and the other fourteen were down-regulated in the treatments. These new findings certainly were a consequence of using a superior statistical analysis approach, since the original study did not take into account the dependence of data variability on the average signal intensity of each gene. The web interface, supplementary information, and the package source code are available, free, to non-commercial users at http://ipe.cbmeg.unicamp.br/pub/PMmA.

  5. Pipeline for macro- and microarray analyses.

    Science.gov (United States)

    Vicentini, R; Menossi, M

    2007-05-01

    The pipeline for macro- and microarray analyses (PMmA) is a set of scripts with a web interface developed to analyze DNA array data generated by array image quantification software. PMmA is designed for use with single- or double-color array data and to work as a pipeline in five classes (data format, normalization, data analysis, clustering, and array maps). It can also be used as a plugin in the BioArray Software Environment, an open-source database for array analysis, or used in a local version of the web service. All scripts in PMmA were developed in the PERL programming language and statistical analysis functions were implemented in the R statistical language. Consequently, our package is a platform-independent software. Our algorithms can correctly select almost 90% of the differentially expressed genes, showing a superior performance compared to other methods of analysis. The pipeline software has been applied to 1536 expressed sequence tags macroarray public data of sugarcane exposed to cold for 3 to 48 h. PMmA identified thirty cold-responsive genes previously unidentified in this public dataset. Fourteen genes were up-regulated, two had a variable expression and the other fourteen were down-regulated in the treatments. These new findings certainly were a consequence of using a superior statistical analysis approach, since the original study did not take into account the dependence of data variability on the average signal intensity of each gene. The web interface, supplementary information, and the package source code are available, free, to non-commercial users at http://ipe.cbmeg.unicamp.br/pub/PMmA. PMID:17464422

  6. Recent analyses of PHENIX End of Life Tests and perspectives

    International Nuclear Information System (INIS)

    This paper presents the recent analyses of Phénix End of Life tests performed with the most advanced modelling developments, and a global assessment of the campaign. The following items are specifically touched upon: core decay heat removal measurement and associated uncertainties, natural convection in reactor vessel using coupled system and CFD models, and neutronic/mechanical behaviour of the core during flowering test. Finally, it appears that the Phénix decay heat measurement test can be added to the validation basis of DARWIN code associated to JEFF3.1.1. The discrepancies with experimental data are weak (under +/- 8%) and globally covered by uncertainties. Concerning the primary natural convection test, the use of a CFD/system coupled calculation allows to model very accurately the sodium temperatures during the transient. The behaviour of the core during static flowering test can be well estimated by using HARMONIE code for mechanical aspects and TRIPOLI for neutronics. A new test is scheduled in Phénix to assess the core mechanics code in case of dynamic load. (author)

  7. 78 FR 63479 - Meta-Analyses of Randomized Controlled Clinical Trials (RCTs) for the Evaluation of Risk To...

    Science.gov (United States)

    2013-10-24

    ... HUMAN SERVICES Food and Drug Administration Meta-Analyses of Randomized Controlled Clinical Trials (RCTs... scientific approaches for the conduct and assessment of meta-analyses of randomized controlled clinical trials (RCTs) to evaluate safety risks associated with the use of human drugs or biological...

  8. Introducing ShakeMap Atlas 2.0: An Improved Suite of Recent Historical Earthquake ShakeMaps for Global Hazard Analyses

    Science.gov (United States)

    Garcia, D.; Mah, R. T.; Johnson, K. L.; Worden, B. C.; Hearne, M. G.; Marano, K. D.; Lin, K.; Wald, D. J.

    2011-12-01

    The U.S. Geological Survey (USGS) ShakeMap system is a widely used tool for assessing the ground motion during an earthquake in near-real time applications, but also for past events and seismic scenarios. The ShakeMap Atlas (Allen et al., 2008) is a compilation of nearly 5,000 ShakeMaps of global events that comprises the most damaging and potentially damaging earthquakes between 1973 and 2007. The Atlas is an invaluable resource for investigating strong ground-motion near the source, and it is also used for calibrating the USGS Prompt Assessment of Global Earthquakes for Response (PAGER) system. Here we present an extensively revised version of the Atlas, which includes as new features the use of: (1) a new version of ShakeMap; (2) an updated source catalog; (3) a refined ground-motion prediction equation (GMPE) selection; and (4) many more macroseismic intensity and ground-motion data. The new version of ShakeMap (V3.5; Worden et al., 2010) treats in a separate way native and converted data when mapping each intensity measure (MMI, PGA, PGV, and PSA). This is especially important for intensity observations, which are the main data source in the aftermath of most global events. ShakeMap V3.5 also allows for the inclusion of intensity prediction equations and makes use of improved mapping techniques and uncertainty estimations. Earthquake global hypocenters have been substituted, when possible, for regional locations and, in some cases, finite source models not included before. The Atlas span has been extended till mid 2010, and some older events have also been added for the 1973-2007 period. In order to improve the adequacy of the GMPE used by ShakeMap to estimate the ground shaking for a given event where data are not available, we use a new global selection scheme to discriminate between different types of earthquakes (García et al., 2011). Finally, we have included a large amount of recently available observations from national and regional networks. All these

  9. Introducing ShakeMap Atlas 2.0: An improved suite of recent historical earthquake ShakeMaps for global hazard analyses

    Science.gov (United States)

    Garcia, D.; Mah, R.T.; Johnson, K.L.; Worden, B.C.; Hearne, M.G.; Marano, K.D.; Lin, K.; Wald, D.J.

    2011-01-01

    The U.S. Geological Survey (USGS) ShakeMap system is a widely used tool for assessing the ground motion during an earthquake in near-real time applications, but also for past events and seismic scenarios. The ShakeMap Atlas (Allen et al., 2008) is a compilation of nearly 5,000 ShakeMaps of global events that comprises the most damaging and potentially damaging earthquakes between 1973 and 2007. The Atlas is an invaluable resource for investigating strong ground-motion near the source, and it is also used for calibrating the USGS Prompt Assessment of Global Earthquakes for Response (PAGER) system. Here we present an extensively revised version of the Atlas, which includes as new features the use of: (1) a new version of ShakeMap; (2) an updated source catalog; (3) a refined ground-motion prediction equation (GMPE) selection; and (4) many more macroseismic intensity and ground-motion data. The new version of ShakeMap (V3.5; Worden et al., 2010) treats in a separate way native and converted data when mapping each intensity measure (MMI, PGA, PGV, and PSA). This is especially important for intensity observations, which are the main data source in the aftermath of most global events. ShakeMap V3.5 also allows for the inclusion of intensity prediction equations and makes use of improved mapping techniques and uncertainty estimations. Earthquake global hypocenters have been substituted, when possible, for regional locations and, in some cases, finite source models not included before. The Atlas span has been extended till mid 2010, and some older events have also been added for the 1973-2007 period. In order to improve the adequacy of the GMPE used by ShakeMap to estimate the ground shaking for a given event where data are not available, we use a new global selection scheme to discriminate between different types of earthquakes (García et al., 2011). Finally, we have included a large amount of recently available observations from national and regional networks. All these

  10. LOD score exclusion analyses for candidate disease susceptibility genes using case-parents design

    Institute of Scientific and Technical Information of China (English)

    DENG Hongwen; GAO Guimin

    2006-01-01

    The focus of almost all the association studies of candidate genes is to test for their importance. We recently developed a LOD score approach that can be used to test against the importance of candidate genes for complex diseases and quantitative traits in random samples. As a complementary method to regular association analyses, our LOD score approach is powerful but still affected by the population admixture, though it is more conservative. To control the confounding effect of population heterogeneity, we develop here a LOD score exclusion analysis using case-parents design, the basic design of the transmission disequilibrium test (TDT) approach that is immune to population admixture. In the analysis, specific genetic effects and inheritance models at candidate genes can be analyzed and if a LOD score is ≤ - 2.0, the locus can be excluded from having an effect larger than that specified. Simulations show that this approach has reasonable power to exclude a candidate gene having small genetic effects if it is not a disease susceptibility locus (DSL) with sample size often employed in TDT studies. Similar to association analyses with the TDT in nuclear families, our exclusion analyses are generally not affected by population admixture. The exclusion analyses may be implemented to rule out candidate genes with no or minor genetic effects as supplemental analyses for the TDT. The utility of the approach is illustrated with an application to test the importance of vitamin D receptor (VDR) gene underlying the differential risk to osteoporosis.

  11. Microwave power transmission system studies. Volume 2: Introduction, organization, environmental and spaceborne systems analyses

    Science.gov (United States)

    Maynard, O. E.; Brown, W. C.; Edwards, A.; Haley, J. T.; Meltz, G.; Howell, J. M.; Nathan, A.

    1975-01-01

    Introduction, organization, analyses, conclusions, and recommendations for each of the spaceborne subsystems are presented. Environmental effects - propagation analyses are presented with appendices covering radio wave diffraction by random ionospheric irregularities, self-focusing plasma instabilities and ohmic heating of the D-region. Analyses of dc to rf conversion subsystems and system considerations for both the amplitron and the klystron are included with appendices for the klystron covering cavity circuit calculations, output power of the solenoid-focused klystron, thermal control system, and confined flow focusing of a relativistic beam. The photovoltaic power source characteristics are discussed as they apply to interfacing with the power distribution flow paths, magnetic field interaction, dc to rf converter protection, power distribution including estimates for the power budget, weights, and costs. Analyses for the transmitting antenna consider the aperture illumination and size, with associated efficiencies and ground power distributions. Analyses of subarray types and dimensions, attitude error, flatness, phase error, subarray layout, frequency tolerance, attenuation, waveguide dimensional tolerances, mechanical including thermal considerations are included. Implications associated with transportation, assembly and packaging, attitude control and alignment are discussed. The phase front control subsystem, including both ground based pilot signal driven adaptive and ground command approaches with their associated phase errors, are analyzed.

  12. Pollen analyses for pollination research, acetolysis

    Directory of Open Access Journals (Sweden)

    Gretchen D. Jones

    2014-08-01

    Full Text Available Analysis of the pollen associated with pollinators can reveal their role in pollination, the habitats and plants they visit, from where they migrated, what they eat, and dispersal patterns in and around cropping systems. However, finding pollen on and or in a pollinator depends on the technique used to recover the pollen. Acetolysis can be used to recover pollen from internal insect tissues (gut, alimentary canal, crop, etc., external tissues (proboscis, legs, eyes, etc. or both. Acetolysis is the best technique for recovering pollen because any tissue is dissolved and lipids and debris are removed from the sample and the pollen grains. This makes the diagnostic characteristics of the pollen grains more visible so that accurate pollen identification can be made. By using the proper technique, better pollen recovery can be made and thus better data can be obtained.

  13. Pollen analyses for pollination research, unacetolyzed pollen

    Directory of Open Access Journals (Sweden)

    Gretchen D. Jones

    2012-10-01

    Full Text Available Pollinators feed on the pollen, nectar, and other plant exudates that are associated with flowers. As a result of this feeding activity, pollen becomes attached to them. Analysis of this pollen can reveal what they eat, their dispersal patterns in and around cropping systems, and their role in pollination. However, finding pollen on and or in a pollinator depends on the technique used to recover pollen. Two very easy techniques are described in detail that have been used to recover pollen from a variety of pollinators including beneficial and harmful insects, spiders, bats, and other pollinators. These techniques can be used to recover pollen from internal tissues (gut, alimentary canal, crop, etc., external tissues (proboscis, legs, eyes, etc., or both. By using the proper technique, better pollen recovery can be made and thus better data can be obtained about the pollinators, the foods they eat, the plants they pollinate, their migration routes and source zones.

  14. First Super-Earth Atmosphere Analysed

    Science.gov (United States)

    2010-12-01

    The atmosphere around a super-Earth exoplanet has been analysed for the first time by an international team of astronomers using ESO's Very Large Telescope. The planet, which is known as GJ 1214b, was studied as it passed in front of its parent star and some of the starlight passed through the planet's atmosphere. We now know that the atmosphere is either mostly water in the form of steam or is dominated by thick clouds or hazes. The results will appear in the 2 December 2010 issue of the journal Nature. The planet GJ 1214b was confirmed in 2009 using the HARPS instrument on ESO's 3.6-metre telescope in Chile (eso0950) [1]. Initial findings suggested that this planet had an atmosphere, which has now been confirmed and studied in detail by an international team of astronomers, led by Jacob Bean (Harvard-Smithsonian Center for Astrophysics), using the FORS instrument on ESO's Very Large Telescope. "This is the first super-Earth to have its atmosphere analysed. We've reached a real milestone on the road toward characterising these worlds," said Bean. GJ 1214b has a radius of about 2.6 times that of the Earth and is about 6.5 times as massive, putting it squarely into the class of exoplanets known as super-Earths. Its host star lies about 40 light-years from Earth in the constellation of Ophiuchus (the Serpent Bearer). It is a faint star [2], but it is also small, which means that the size of the planet is large compared to the stellar disc, making it relatively easy to study [3]. The planet travels across the disc of its parent star once every 38 hours as it orbits at a distance of only two million kilometres: about seventy times closer than the Earth orbits the Sun. To study the atmosphere, the team observed the light coming from the star as the planet passed in front of it [4]. During these transits, some of the starlight passes through the planet's atmosphere and, depending on the chemical composition and weather on the planet, specific wavelengths of light are

  15. Differences in Biofilm Mass, Expression of Biofilm-Associated Genes, and Resistance to Desiccation between Epidemic and Sporadic Clones of Carbapenem-Resistant Acinetobacter baumannii Sequence Type 191

    Science.gov (United States)

    Selasi, Gati Noble; Nicholas, Asiimwe; Jeon, Hyejin; Na, Seok Hyeon; Kwon, Hyo Il; Kim, Yoo Jeong; Heo, Sang Taek; Oh, Man Hwan; Lee, Je Chul

    2016-01-01

    Understanding the biology behind the epidemicity and persistence of Acinetobacter baumannii in the hospital environment is critical to control outbreaks of infection. This study investigated the contributing factors to the epidemicity of carbapenem-resistant A. baumannii (CRAB) sequence type (ST) 191 by comparing the differences in biofilm formation, expression of biofilm-associated genes, and resistance to desiccation between major epidemic (n = 16), minor epidemic (n = 12), and sporadic (n = 12) clones. Biofilm mass was significantly greater in the major epidemic than the minor epidemic and sporadic clones. Major and minor epidemic clones expressed biofilm-associated genes, abaI, bap, pgaABCD, and csuA/BABCDE, higher than the sporadic clones in sessile conditions. The csuC, csuD, and csuE genes were more highly expressed in the major epidemic than minor epidemic clones. Interestingly, minor epidemic clones expressed more biofilm-associated genes than the major epidemic clone under planktonic conditions. Major epidemic clones were more resistant to desiccation than minor epidemic and sporadic clones on day 21. In conclusion, the epidemic CRAB ST191 clones exhibit a higher capacity to form biofilms, express the biofilm-associated genes under sessile conditions, and resist desiccation than sporadic clones. These phenotypic and genotypic characteristics of CRAB ST191 may account for the epidemicity of specific CRAB ST191 clones in the hospital. PMID:27622249

  16. Growth anomalies on the coral genera Acropora and Porites are strongly associated with host density and human population size across the Indo-Pacific.

    Directory of Open Access Journals (Sweden)

    Greta S Aeby

    Full Text Available Growth anomalies (GAs are common, tumor-like diseases that can cause significant morbidity and decreased fecundity in the major Indo-Pacific reef-building coral genera, Acropora and Porites. GAs are unusually tractable for testing hypotheses about drivers of coral disease because of their pan-Pacific distributions, relatively high occurrence, and unambiguous ease of identification. We modeled multiple disease-environment associations that may underlie the prevalence of Acropora growth anomalies (AGA (n = 304 surveys and Porites growth anomalies (PGA (n = 602 surveys from across the Indo-Pacific. Nine predictor variables were modeled, including coral host abundance, human population size, and sea surface temperature and ultra-violet radiation anomalies. Prevalence of both AGAs and PGAs were strongly host density-dependent. PGAs additionally showed strong positive associations with human population size. Although this association has been widely posited, this is one of the first broad-scale studies unambiguously linking a coral disease with human population size. These results emphasize that individual coral diseases can show relatively distinct patterns of association with environmental predictors, even in similar diseases (growth anomalies found on different host genera (Acropora vs. Porites. As human densities and environmental degradation increase globally, the prevalence of coral diseases like PGAs could increase accordingly, halted only perhaps by declines in host density below thresholds required for disease establishment.

  17. Differences in Biofilm Mass, Expression of Biofilm-Associated Genes, and Resistance to Desiccation between Epidemic and Sporadic Clones of Carbapenem-Resistant Acinetobacter baumannii Sequence Type 191.

    Science.gov (United States)

    Selasi, Gati Noble; Nicholas, Asiimwe; Jeon, Hyejin; Na, Seok Hyeon; Kwon, Hyo Il; Kim, Yoo Jeong; Heo, Sang Taek; Oh, Man Hwan; Lee, Je Chul

    2016-01-01

    Understanding the biology behind the epidemicity and persistence of Acinetobacter baumannii in the hospital environment is critical to control outbreaks of infection. This study investigated the contributing factors to the epidemicity of carbapenem-resistant A. baumannii (CRAB) sequence type (ST) 191 by comparing the differences in biofilm formation, expression of biofilm-associated genes, and resistance to desiccation between major epidemic (n = 16), minor epidemic (n = 12), and sporadic (n = 12) clones. Biofilm mass was significantly greater in the major epidemic than the minor epidemic and sporadic clones. Major and minor epidemic clones expressed biofilm-associated genes, abaI, bap, pgaABCD, and csuA/BABCDE, higher than the sporadic clones in sessile conditions. The csuC, csuD, and csuE genes were more highly expressed in the major epidemic than minor epidemic clones. Interestingly, minor epidemic clones expressed more biofilm-associated genes than the major epidemic clone under planktonic conditions. Major epidemic clones were more resistant to desiccation than minor epidemic and sporadic clones on day 21. In conclusion, the epidemic CRAB ST191 clones exhibit a higher capacity to form biofilms, express the biofilm-associated genes under sessile conditions, and resist desiccation than sporadic clones. These phenotypic and genotypic characteristics of CRAB ST191 may account for the epidemicity of specific CRAB ST191 clones in the hospital. PMID:27622249

  18. Growth anomalies on the coral genera Acropora and Porites are strongly associated with host density and human population size across the Indo-Pacific

    Science.gov (United States)

    Aeby, G.S.; Williams, G.J.; Franklin, E.C.; Haapkyla, J.; Harvell, C.D.; Neale, S.; Page, C.A.; Raymundo, L.; Vargas-Angel, B.; Willis, B.L.; Work, T.M.; Davy, S.K.

    2011-01-01

    Growth anomalies (GAs) are common, tumor-like diseases that can cause significant morbidity and decreased fecundity in the major Indo-Pacific reef-building coral genera, Acropora and Porites. GAs are unusually tractable for testing hypotheses about drivers of coral disease because of their pan-Pacific distributions, relatively high occurrence, and unambiguous ease of identification. We modeled multiple disease-environment associations that may underlie the prevalence of Acropora growth anomalies (AGA) (n = 304 surveys) and Porites growth anomalies (PGA) (n = 602 surveys) from across the Indo-Pacific. Nine predictor variables were modeled, including coral host abundance, human population size, and sea surface temperature and ultra-violet radiation anomalies. Prevalence of both AGAs and PGAs were strongly host density-dependent. PGAs additionally showed strong positive associations with human population size. Although this association has been widely posited, this is one of the first broad-scale studies unambiguously linking a coral disease with human population size. These results emphasize that individual coral diseases can show relatively distinct patterns of association with environmental predictors, even in similar diseases (growth anomalies) found on different host genera (Acropora vs. Porites). As human densities and environmental degradation increase globally, the prevalence of coral diseases like PGAs could increase accordingly, halted only perhaps by declines in host density below thresholds required for disease establishment.

  19. Bicycling injury hospitalisation rates in Canadian jurisdictions: analyses examining associations with helmet legislation and mode share

    OpenAIRE

    Teschke, Kay; Koehoorn, Mieke; Shen, Hui; Dennis, Jessica

    2015-01-01

    Objectives The purpose of this study was to calculate exposure-based bicycling hospitalisation rates in Canadian jurisdictions with different helmet legislation and bicycling mode shares, and to examine whether the rates were related to these differences. Methods Administrative data on hospital stays for bicycling injuries to 10 body region groups and national survey data on bicycling trips were used to calculate hospitalisation rates. Rates were calculated for 44 sex, age and jurisdiction st...

  20. Social, economic and political factors associated with earth resources observation and information analyses.

    Science.gov (United States)

    Hall, J. J.

    1972-01-01

    Discussion of some of the interest conflicts between ecology and economics that arise, particularly in riparian environments, when a population-increase entailed growth in public service requirements is met by indiscriminate technology applications. Reviewed instances of such conflicts include the aborted cross-Florida barge canal project and the Florida Power and Light Company facility at Turkey point.

  1. Genomic selection and genome-wide association analyses for bioenergy traits in switchgrass

    Science.gov (United States)

    Switchgrass, a relatively high-yielding and environmentally sustainable biomass crop, has been chosen by the USDA and the USDOE as one of the main sources of bioenergy in the US. However, further genetic gains in biomass yield and quality must be achieved to make it an economically viable bioenergy ...

  2. Studies of the TLR4-associated protein MD-2 using yeast-display and mutational analyses.

    Science.gov (United States)

    Mattis, Daiva M; Chervin, Adam S; Ranoa, Diana R; Kelley, Stacy L; Tapping, Richard I; Kranz, David M

    2015-12-01

    Bacterial lipopolysaccharide (LPS) activates the innate immune system by forming a complex with myeloid differentiation factor 2 (MD-2) and Toll-like receptor 4 (TLR4), which is present on antigen presenting cells. MD-2 plays an essential role in this activation of the innate immune system as a member of the ternary complex, TLR4:MD-2:LPS. With the goal of further understanding the molecular details of the interaction of MD-2 with LPS and TLR4, and possibly toward engineering dominant negative regulators of the MD-2 protein, here we subjected MD-2 to a mutational analysis using yeast display. The approach included generation of site-directed alanine mutants, and ligand-driven selections of MD-2 mutant libraries. Our findings showed that: (1) proline mutations in the F119-K132 loop that binds LPS were strongly selected for enhanced yeast surface stability, (2) there was a preference for positive-charged side chains (R/K) at residue 120 for LPS binding, and negative-charged side chains (D/E) for TLR4 binding, (3) aromatic residues were strongly preferred at F119 and F121 for LPS binding, and (4) an MD-2 mutant (T84N/D101A/S118A/S120D/K122P) exhibited increased binding to TLR4 but decreased binding to LPS. These studies revealed the impact of specific residues and regions of MD-2 on the binding of LPS and TLR4, and they provide a framework for further directed evolution of the MD-2 protein. PMID:26320630

  3. Systematic review with meta-analyses of studies on the association between cirrhosis and liver metastases

    DEFF Research Database (Denmark)

    Dahl, Emilie; Rumessen, Jüri; Gluud, Lise L

    2011-01-01

    effects models due to an expected clinical heterogeneity. Sixteen studies were included. Evidence of liver metastases was diagnosed in 22% of cases and 38% of controls based on autopsies (n = 14 studies) or laparoscopy (n = 2 studies). Random effects meta-analysis suggested that patients with cirrhosis...... (Medline, Embase, and Web of Science) and manual searches were combined (October 2010) to identify observational studies on patients with malignant disease reporting the risk of liver metastases among cases (with cirrhosis) and controls (without liver disease). Meta-analysis was performed using random...

  4. Gastric inhibitory polypeptide receptor: association analyses for obesity of several polymorphisms in large study groups

    Directory of Open Access Journals (Sweden)

    Rief Winfried

    2009-03-01

    Full Text Available Abstract Background Gastric inhibitory polypeptide (GIP is postulated to be involved in type 2 diabetes mellitus and obesity. It exerts its function through its receptor, GIPR. We genotyped three GIPR SNPs (rs8111428, rs2302382 and rs1800437 in German families with at least one obese index patient, two case-control studies and two cross-sectional population-based studies. Methods Genotyping was performed by MALDI-TOF, ARMS-PCR and RFLP. The family-study: 761 German families with at least one extremely obese child or adolescent (n = 1,041 and both parents (n = 1,522. Case-control study: (a German obese children (n = 333 and (b obese adults (n = 987 in comparison to 588 adult lean controls. The two cross-sectional population-based studies: KORA (n = 8,269 and SHIP (n = 4,310. Results We detected over-transmission of the A-allele of rs2302382 in the German families (pTDT-Test = 0.0089. In the combined case-control sample, we estimated an odd ratio of 1.54 (95%CI 1.09;2.19, pCA-Test = 0.014 for homozygotes of the rs2302382 A-allele compared to individuals with no A-allele. A similar trend was found in KORA where the rs2302382 A-allele led to an increase of 0.12 BMI units (p = 0.136. In SHIP, however, the A-allele of rs2302382 was estimated to contribute an average decrease of 0.27 BMI units (p-value = 0.031. Conclusion Our data suggest a potential relevance of GIPR variants for obesity. However, additional studies are warranted in light of the conflicting results obtained in one of the two population-based studies.

  5. Proteomic analyses associate cystatin B with restricted HIV-1 replication in placental macrophages

    OpenAIRE

    Luciano-Montalvo, Claribel; Ciborowski, Pawel; Duan, Fenghai; Gendelman, Howard E.; Meléndez, Loyda M.

    2008-01-01

    Mononuclear phagocytes (MP; monocytes, tissue macrophages, and dendritic cells) are reservoirs, vehicles of dissemination, and targets for persistent HIV infection. However, not all MP populations equally support viral growth. Such differential replication is typified by the greater ability of placental macrophages (PM), as compared with monocyte-derived macrophages (MDM), to restrict viral replication. Since cytosolic protein patterns can differentiate macrophage subtypes, we used a proteomi...

  6. Analyses of risks associated with radiation exposure from past major solar particle events

    Science.gov (United States)

    Weyland, Mark D.; Atwell, William; Cucinotta, Francis A.; Wilson, John W.; Hardy, Alva C.

    1991-01-01

    Radiation exposures and cancer induction/mortality risks were investigated for several major solar particle events (SPE's). The SPE's included are: February 1956, November 1960, August 1972, October 1989, and the September, August, and October 1989 events combined. The three 1989 events were treated as one since all three could affect a single lunar or Mars mission. A baryon transport code was used to propagate particles through aluminum and tissue shield materials. A free space environment was utilized for all calculations. Results show the 30-day blood forming organs (BFO) limit of 25 rem was surpassed by all five events using 10 g/sq cm of shielding. The BFO limit is based on a depth dose of 5 cm of tissue, while a more detailed shield distribution of the BFO's was utilized. A comparison between the 5 cm depth dose and the dose found using the BFO shield distribution shows that the 5 cm depth value slightly higher than the BFO dose. The annual limit of 50 rem was exceeded by the August 1972, October 1989, and the three combined 1989 events with 5 g/sq cm of shielding. Cancer mortality risks ranged from 1.5 to 17 percent at 1 g/sq cm and 0.5 to 1.1 percent behind 10 g/sq cm of shielding for five events. These ranges correspond to those for a 45 year old male. It is shown that secondary particles comprise about 1/3 of the total risk at 10 g/sq cm of shielding. Utilizing a computerized Space Shuttle shielding model to represent a typical spacecraft configuration in free space at the August 1972 SPE, average crew doses exceeded the BFO dose limit.

  7. Analysing lawyers’ attitude towards knowledge sharing

    Directory of Open Access Journals (Sweden)

    Wole M. Olatokun

    2012-02-01

    Full Text Available Objectives: The study examined and identified the factors that affect lawyers’ attitudes to knowledge sharing, and their knowledge sharing behaviour. Specifically, it investigated the relationship between the salient beliefs affecting the knowledge sharing attitude of lawyers’, and applied a modified version of the Theory of Reasoned Action (TRA in the knowledge sharing context, to predict how these factors affect their knowledge sharing behaviour.Method: A field survey of 273 lawyers was carried out, using questionnaire for data collection. Collected data on all variables were structured into grouped frequency distributions. Principal Component Factor Analysis was applied to reduce the constructs and Simple Regression was applied to test the hypotheses. These were tested at 0.05% level of significance.Results: Results showed that expected associations and contributions were the major determinants of lawyers’ attitudes towards knowledge sharing. Expected reward was not significantly related to lawyers’ attitudes towards knowledge sharing. A positive attitude towards knowledge sharing was found to lead to a positive intention to share knowledge, although a positive intention to share knowledge did not significantly predict a positive knowledge sharing behaviour. The level of Information Technology (IT usage was also found to significantly affect the knowledge sharing behaviour of lawyers’.Conclusion: It was recommended that law firms in the study area should deploy more IT infrastructure and services that encourage effective knowledge sharing amongst lawyers. 

  8. Technology advancement for integrative stem cell analyses.

    Science.gov (United States)

    Jeong, Yoon; Choi, Jonghoon; Lee, Kwan Hyi

    2014-12-01

    Scientists have endeavored to use stem cells for a variety of applications ranging from basic science research to translational medicine. Population-based characterization of such stem cells, while providing an important foundation to further development, often disregard the heterogeneity inherent among individual constituents within a given population. The population-based analysis and characterization of stem cells and the problems associated with such a blanket approach only underscore the need for the development of new analytical technology. In this article, we review current stem cell analytical technologies, along with the advantages and disadvantages of each, followed by applications of these technologies in the field of stem cells. Furthermore, while recent advances in micro/nano technology have led to a growth in the stem cell analytical field, underlying architectural concepts allow only for a vertical analytical approach, in which different desirable parameters are obtained from multiple individual experiments and there are many technical challenges that limit vertically integrated analytical tools. Therefore, we propose--by introducing a concept of vertical and horizontal approach--that there is the need of adequate methods to the integration of information, such that multiple descriptive parameters from a stem cell can be obtained from a single experiment.

  9. Residual Strength Analyses of Monolithic Structures

    Science.gov (United States)

    Forth, Scott (Technical Monitor); Ambur, Damodar R. (Technical Monitor); Seshadri, B. R.; Tiwari, S. N.

    2003-01-01

    Finite-element fracture simulation methodology predicts the residual strength of damaged aircraft structures. The methodology uses the critical crack-tip-opening-angle (CTOA) fracture criterion to characterize the fracture behavior of the material. The CTOA fracture criterion assumes that stable crack growth occurs when the crack-tip angle reaches a constant critical value. The use of the CTOA criterion requires an elastic- plastic, finite-element analysis. The critical CTOA value is determined by simulating fracture behavior in laboratory specimens, such as a compact specimen, to obtain the angle that best fits the observed test behavior. The critical CTOA value appears to be independent of loading, crack length, and in-plane dimensions. However, it is a function of material thickness and local crack-front constraint. Modeling the local constraint requires either a three-dimensional analysis or a two-dimensional analysis with an approximation to account for the constraint effects. In recent times as the aircraft industry is leaning towards monolithic structures with the intention of reducing part count and manufacturing cost, there has been a consistent effort at NASA Langley to extend critical CTOA based numerical methodology in the analysis of integrally-stiffened panels.In this regard, a series of fracture tests were conducted on both flat and curved aluminum alloy integrally-stiffened panels. These flat panels were subjected to uniaxial tension and during the test, applied load-crack extension, out-of-plane displacements and local deformations around the crack tip region were measured. Compact and middle-crack tension specimens were tested to determine the critical angle (wc) using three-dimensional code (ZIP3D) and the plane-strain core height (hJ using two-dimensional code (STAGS). These values were then used in the STAGS analysis to predict the fracture behavior of the integrally-stiffened panels. The analyses modeled stable tearing, buckling, and crack

  10. Compilation and network analyses of cambrian food webs.

    Directory of Open Access Journals (Sweden)

    Jennifer A Dunne

    2008-04-01

    Full Text Available A rich body of empirically grounded theory has developed about food webs--the networks of feeding relationships among species within habitats. However, detailed food-web data and analyses are lacking for ancient ecosystems, largely because of the low resolution of taxa coupled with uncertain and incomplete information about feeding interactions. These impediments appear insurmountable for most fossil assemblages; however, a few assemblages with excellent soft-body preservation across trophic levels are candidates for food-web data compilation and topological analysis. Here we present plausible, detailed food webs for the Chengjiang and Burgess Shale assemblages from the Cambrian Period. Analyses of degree distributions and other structural network properties, including sensitivity analyses of the effects of uncertainty associated with Cambrian diet designations, suggest that these early Paleozoic communities share remarkably similar topology with modern food webs. Observed regularities reflect a systematic dependence of structure on the numbers of taxa and links in a web. Most aspects of Cambrian food-web structure are well-characterized by a simple "niche model," which was developed for modern food webs and takes into account this scale dependence. However, a few aspects of topology differ between the ancient and recent webs: longer path lengths between species and more species in feeding loops in the earlier Chengjiang web, and higher variability in the number of links per species for both Cambrian webs. Our results are relatively insensitive to the exclusion of low-certainty or random links. The many similarities between Cambrian and recent food webs point toward surprisingly strong and enduring constraints on the organization of complex feeding interactions among metazoan species. The few differences could reflect a transition to more strongly integrated and constrained trophic organization within ecosystems following the rapid

  11. SSCM analyses of biomass resources in Randers, Norddjurs and Syddjurs

    Energy Technology Data Exchange (ETDEWEB)

    2010-07-15

    This project has been commissioned by ENERCOAST whose overall aim is to stimulate increased use and production of biomass, and create a market for bio energy in the North Sea region. The Enercoast project has been financed by the EU Interreg IVB with partners from Denmark, Germany, United Kingdom, Sweden and Norway. The Danish project leader is AgroBusiness Park/ CBMI /Innovation Centre for Bioenergy and Environmental Technology. Central Region Denmark is co-financing 34% of the Danish portion of the project, while the municipalities of Norddjurs, Syddjurs and Randers are contributing to the project with their working hours. The Danish portion of this project focuses on three Danish municipalities, Randers, Norddjurs, and Syddjurs, and the possibilities to reach local energy and climate targets by increasing the use and production of biomass. The project is divided into 6 phases of which this report is part of the second and third phase which focus on analyses of various biomass resources on a local level including carrying out SSCM analyses of these resources. The aim of this report is to assess the sustainability of relevant bio energy supply chains related to the resource accessibility in the three municipalities with main focus on biogas, straw, wood residues and energy crops for combined heat and power production. Sustainable Supply Chain Management (SSCM) is a concept that has many definitions and the methodologies used to approach this are numerous. In this report the SSCM analysis is used to answer the following question: What are the possibilities of increased use of biomass for energy production in the three municipalities, and what consequences are associated with the utilisation of each of the selected resources described through our case studies? For each of the resource case studies an overview of the supply chain is illustrated through a matrix. Each step of the supply chain from the primal material production in on end to heat and electricity

  12. Metatranscriptomic analyses of honey bee colonies.

    Science.gov (United States)

    Tozkar, Cansu Ö; Kence, Meral; Kence, Aykut; Huang, Qiang; Evans, Jay D

    2015-01-01

    Honey bees face numerous biotic threats from viruses to bacteria, fungi, protists, and mites. Here we describe a thorough analysis of microbes harbored by worker honey bees collected from field colonies in geographically distinct regions of Turkey. Turkey is one of the World's most important centers of apiculture, harboring five subspecies of Apis mellifera L., approximately 20% of the honey bee subspecies in the world. We use deep ILLUMINA-based RNA sequencing to capture RNA species for the honey bee and a sampling of all non-endogenous species carried by bees. After trimming and mapping these reads to the honey bee genome, approximately 10% of the sequences (9-10 million reads per library) remained. These were then mapped to a curated set of public sequences containing ca. Sixty megabase-pairs of sequence representing known microbial species associated with honey bees. Levels of key honey bee pathogens were confirmed using quantitative PCR screens. We contrast microbial matches across different sites in Turkey, showing new country recordings of Lake Sinai virus, two Spiroplasma bacterium species, symbionts Candidatus Schmidhempelia bombi, Frischella perrara, Snodgrassella alvi, Gilliamella apicola, Lactobacillus spp.), neogregarines, and a trypanosome species. By using metagenomic analysis, this study also reveals deep molecular evidence for the presence of bacterial pathogens (Melissococcus plutonius, Paenibacillus larvae), Varroa destructor-1 virus, Sacbrood virus, and fungi. Despite this effort we did not detect KBV, SBPV, Tobacco ringspot virus, VdMLV (Varroa Macula like virus), Acarapis spp., Tropilaeleps spp. and Apocephalus (phorid fly). We discuss possible impacts of management practices and honey bee subspecies on microbial retinues. The described workflow and curated microbial database will be generally useful for microbial surveys of healthy and declining honey bees. PMID:25852743

  13. Determination of Waste Groupings for Safety Analyses

    Energy Technology Data Exchange (ETDEWEB)

    BARKER, S.A.

    2000-04-27

    Two workshops were held in May and July 1999 to review data analysis methodologies associated with the analysis of flammable gas behavior. The workshop participants decided that missing data could he estimated by using a distribution of values that encompassed tanks with wastes that behaved in a similar fashion. It was also determined that because of the limited amount of tank data pertaining to flammable gas generation and retention, it was not justified to divide the tanks into many small waste groupings. The purpose for grouping tanks is so that limited gas retention and release data, which may be available for some tanks within a group, can be applied to other tanks containing the same waste form. This is necessary when estimating waste properties for tanks with missing or incomplete information. Following the workshop, a preliminary tank grouping was prepared based on content of solids, liquids, sludge, saltcake, or salt slurry The saltcake and salt slurry were then grouped together and referred to as saltcake/salt slurry. Initial tank classifications were based on waste forms from the Rest Basis Inventory, the Hanford Defined Waste (HDW) (''Agnew'') Model, or the Waste Tank Summary (''Hanlon'') Report The results of this grouping arc presented in ''Flamable Gas Safety Analysis Data Review'', SNL-000 198 (Barker, et al., 1999). At the time of the release of SNL-000198, tank waste inventories were not consistent between published sources, such as the ''Best Basis Inventory'' and the ''Waste Tank Summary Report for Month Ending August 31, 1999'' (Hanlon l999). This calculation note documents the process and basis used when revising the waste groupings following the release of SNL-000198. The waste layer volume information is compared between the various databases, including information obtained from process measurements. Differences are then resolved based on tank

  14. Advanced Power Plant Development and Analyses Methodologies

    Energy Technology Data Exchange (ETDEWEB)

    G.S. Samuelsen; A.D. Rao

    2006-02-06

    Under the sponsorship of the U.S. Department of Energy/National Energy Technology Laboratory, a multi-disciplinary team led by the Advanced Power and Energy Program of the University of California at Irvine is defining the system engineering issues associated with the integration of key components and subsystems into advanced power plant systems with goals of achieving high efficiency and minimized environmental impact while using fossil fuels. These power plant concepts include ''Zero Emission'' power plants and the ''FutureGen'' H{sub 2} co-production facilities. The study is broken down into three phases. Phase 1 of this study consisted of utilizing advanced technologies that are expected to be available in the ''Vision 21'' time frame such as mega scale fuel cell based hybrids. Phase 2 includes current state-of-the-art technologies and those expected to be deployed in the nearer term such as advanced gas turbines and high temperature membranes for separating gas species and advanced gasifier concepts. Phase 3 includes identification of gas turbine based cycles and engine configurations suitable to coal-based gasification applications and the conceptualization of the balance of plant technology, heat integration, and the bottoming cycle for analysis in a future study. Also included in Phase 3 is the task of acquiring/providing turbo-machinery in order to gather turbo-charger performance data that may be used to verify simulation models as well as establishing system design constraints. The results of these various investigations will serve as a guide for the U. S. Department of Energy in identifying the research areas and technologies that warrant further support.

  15. Metatranscriptomic analyses of honey bee colonies

    Directory of Open Access Journals (Sweden)

    Cansu Ozge Tozkar

    2015-03-01

    Full Text Available Honey bees face numerous biotic threats from viruses to bacteria, fungi, protists, and mites. Here we describe a thorough analysis of microbes harbored by worker honey bees collected from field colonies in geographically distinct regions of Turkey. Turkey is one of the World’s most important centers of apiculture, harboring 5 subspecies of Apis mellifera L., approximately 20% of the honey bee subspecies in the world. We use deep ILLUMINA-based RNA sequencing to capture RNA species for the honey bee and a sampling of all non-endogenous species carried by bees. After trimming and mapping these reads to the honey bee genome, approximately 10% of the sequences (9-10 million reads per library remained. These were then mapped to a curated set of public sequences containing ca. 60 megabase-pairs of sequence representing known microbial species associated with honey bees. Levels of key honey bee pathogens were confirmed using quantitative PCR screens. We contrast microbial matches across different sites in Turkey, showing new country recordings of Lake Sinai virus, two Spiroplasma bacterium species, symbionts Candidatus Schmidhempelia bombi, Frischella perrara, Snodgrassella alvi, Gilliamella apicola, Lactobacillus spp., neogregarines, and a trypanosome species. By using metagenomic analysis, this study also reveals deep molecular evidence for the presence of bacterial pathogens (Melissococcus plutonius, Paenibacillus larvae, Varroa destructor-1 virus, Sacbrood virus, Apis filamentous virus and fungi. Despite this effort we did not detect KBV, SBPV, Tobacco ringspot virus, VdMLV (Varroa Macula like virus, Acarapis spp., Tropilaeleps spp. and Apocephalus (phorid fly. We discuss possible impacts of management practices and honey bee subspecies on microbial retinues. The described workflow and curated microbial database will be generally useful for microbial surveys of healthy and declining honey bees.

  16. High-Resolution Force Balance Analyses of Tidewater Glacier Dynamics

    Science.gov (United States)

    Enderlin, E. M.; Hamilton, G. S.; O'Neel, S.

    2015-12-01

    Changes in glacier velocity, thickness, and terminus position have been used to infer the dynamic response of tidewater glaciers to environmental perturbations, yet few analyses have attempted to quantify the associated variations in the glacier force balance. Where repeat high-resolution ice thickness and velocity estimates are available, force balance time series can be constructed to investigate the redistribution of driving and resistive forces associated with changes in terminus position. Comparative force balance analyses may, therefore, help us understand the variable dynamic response observed for glaciers in close proximity to each other. Here we construct force balance time series for Helheim Glacier, SE Greenland, and Columbia Glacier, SE Alaska, to investigate differences in dynamic sensitivity to terminus position change. The analysis relies on in situ and remotely sensed observations of ice thickness, velocity, and terminus position. Ice thickness time series are obtained from stereo satellite image-derived surface elevation and continuity-derived bed elevations that are constrained by airborne radar observations. Surface velocity time series are obtained from interferometric synthetic aperture radar (InSAR) observations. Approximately daily terminus positions are from a combination of satellite images and terrestrial time-lapse photographs. Helheim and Columbia glaciers are two of the best-studied Arctic tidewater glaciers with comprehensive high-resolution observational time series, yet we find that bed elevation uncertainties and poorly-constrained stress-coupling length estimates still hinder the analysis of spatial and temporal force balance variations. Here we use a new observationally-based method to estimate the stress-coupling length which successfully reduces noise in the derived force balance but preserves spatial variations that can be over-smoothed when estimating the stress-coupling length as a scalar function of the ice thickness

  17. La méthode d’analyse en groupe

    Directory of Open Access Journals (Sweden)

    Luc Van Campenhoudt

    2009-11-01

    Full Text Available Cet article présente la méthode d’analyse en groupe (MAG. Cette méthode de recherche et d’intervention a pour particularité d’associer directement des acteurs concernés par le problème étudié à l’ensemble de la démarche, du début jusqu’à son terme. Le texte expose la méthode de manière concrète, en détaillant les étapes successives de la démarche et en mettant en évidence ses principales caractéristiques. Sa pertinence dans le contexte social actuel est soulignée, en particulier dans trois domaines : l’action sociale, l’action publique et le développement. Enfin, elle est brièvement discutée sur les plans idéologique, politique, sociologique et épistémologiqueThis article presents the group analysis method (méthode d'analyse en groupe [MAG]. The particularity of this research and intervention method is that the actors concerned by the problem under study are directly associated throughout the whole process, from beginning to end. The text describes how the method functions, detailing each step of the process and highlighting its main features. Its relevance in the current social context is underlined, especially in three areas: social action, public action and development. The article also summarizes the method's ideological, political, sociological and epistemological aspects.Este artículo presenta el método de análisis en grupo (MAG. Este método de investigación y de intervención tiene como particularidad la asociación directa de los actores afectados por el problema estudiado a lo largo de todo el procedimiento, desde el principio al fin. El texto expone el método de forma concreta, detallando las etapas sucesivas del procedimiento y destacando sus principales características. Su pertinencia en el contexto social actual se pone de relieve en tres áreas en particular: la acción social, la acción pública y el desarrollo. Por último, el método es discutido brevemente sobre los planos ideol

  18. L'analyse qualitative comme approche multiple

    Directory of Open Access Journals (Sweden)

    Roberto Cipriani

    2009-11-01

    Full Text Available L’exemple de l’enquête historique, visant à identifier les caractéristiques de la naissance et du développement d’une science et des lectures qu’elle donne des événements sociaux, est des plus originaux. Toute méthodologie historique non seulement débouche sur une pure et simple masse d’épisodes et d’événements, mais est également une narration et une élaboration critique de ces mêmes faits. Michael Postan écrit à juste titre que la complexité des données historiques est cependant de telle nature, et les différences et les similitudes tellement difficiles à cerner, que les efforts des historiens et des sociologues pour construire des comparaisons explicites se sont soldées, pour la plupart, par des tentatives grossières et naïves. La leçon des Annales a contribué en effet à construire l’idée d’une histoire qui puisse lire et expliquer ce qui est uniforme et ce qui est singulier. Rien de plus naturel que la réunion d’« êtres psychiques », à l’instar de l’assemblage des cellules en un organisme, en un « être psychique » nouveau et différent. Un tournant s’impose donc vers une expérimentation empirique plus ample et plus correcte, afin de disposer des instruments adéquats, capables de garantir à la méthodologie micro, qualitative et biographique, une fiabilité suffisante.Historical approach offers a relevant contribution in order to find the features of birth and development of a science which analyses social events. Historical methodology produces not only a lot of data but also a narrative, and an interpretation of facts. According to Michael Postan, history and sociology have made many efforts to compare data that are complex but similar and different at the same time. And the results seem to be naïf. Thanks to Les Annales suggestion it is possible to read and to explain what is uniform and what is singular. To put together “psychical beings”, like organic cells, in a new

  19. RAMA Surveillance Capsule and Component Activation Analyses

    Energy Technology Data Exchange (ETDEWEB)

    Watkins, Kenneth E.; Jones, Eric N. [TransWare Enterprises Inc., 1565 Mediterranean Dr., Sycamore, IL 60178 (United States); Carter, Robert G. [Electric Power Research Institute, 1300 West W. T. Harris Blvd., Charlotte, NC 28262 (United States)

    2011-07-01

    This paper presents the calculated-to-measured ratios associated with the application of the RAMA Fluence Methodology software to light water reactor surveillance capsule and reactor component activation evaluations. Comparisons to measurements are performed for pressurized water reactor and boiling water reactor surveillance capsule activity specimens from seventeen operating light water reactors. Comparisons to measurements are also performed for samples removed from the core shroud, top guide, and jet pump brace pads from two reactors. In conclusion: The flexible geometry modeling capabilities provided by RAMA, combined with the detailed representation of operating reactor history and anisotropic scattering detail, produces accurate predictions of the fast neutron fluence and neutron activation for BWR and PWR surveillance capsule geometries. This allows best estimate RPV fluence to be determined without the need for multiplicative bias corrections. The three-dimensional modeling capability in RAMA provides an accurate estimate of the fast neutron fluence for regions far removed from the core mid-plane elevation. The comparisons to activation measurements for various core components indicate that the RAMA predictions are reasonable, and notably conservative (i.e., C/M ratios are consistently greater than unity). It should be noted that in the current evaluations, the top and bottom fuel regions are represented by six inch height nodes. As a result, the leakage-induced decrease in power near the upper and lower edges of the core are not well represented in the current models. More precise predictions of fluence for components that lie above and below the core boundaries could be obtained if the upper and lower fuel nodes were subdivided into multiple axial regions with assigned powers that reflect the neutron leakage at the top and bottom of the core. This use of additional axial sub-meshing at the top and bottom of the core is analogous to the use of pin

  20. Clostridium difficile-associated diarrhoea.

    OpenAIRE

    Wight, N.; Curtis, H.; Hyde, J.; Borriello, S P; Mahida, Y R

    1998-01-01

    At our hospital, the number of cases of Clostridium difficile-associated diarrhoea increased from 29 in 1993 to 210 in 1995. The case notes of 110 patients with C difficile-associated diarrhoea during the first 6 months of 1995 were analysed retrospectively. The majority of the patients (106) had received antibiotics before the onset of diarrhoea; 46 had received three or more different antibiotics and 28 had received metronidazole. In 19 patients, the first stool sample after the onset of di...

  1. Integrating and scheduling an open set of static analyses

    DEFF Research Database (Denmark)

    Eichberg, Michael; Mezini, Mira; Kloppenburg, Sven;

    2006-01-01

    To improve the productivity of the development process, more and more tools for static software analysis are tightly integrated into the incremental build process of an IDE. If multiple interdependent analyses are used simultaneously, the coordination between the analyses becomes a major obstacle...... to keep the set of analyses open. We propose an approach to integrating and scheduling an open set of static analyses which decouples the individual analyses and coordinates the analysis executions such that the overall time and space consumption is minimized. The approach has been implemented...

  2. Integrated Waste Treatment Unit (IWTU) Input Coal Analyses and Off-Gass Filter (OGF) Content Analyses

    Energy Technology Data Exchange (ETDEWEB)

    Jantzen, Carol M. [Savannah River Site (SRS), Aiken, SC (United States). Savannah River National Lab. (SRNL); Missimer, David M. [Savannah River Site (SRS), Aiken, SC (United States). Savannah River National Lab. (SRNL); Guenther, Chris P. [National Energy Technology Lab. (NETL), Morgantown, WV (United States); Shekhawat, Dushyant [National Energy Technology Lab. (NETL), Morgantown, WV (United States); VanEssendelft, Dirk T. [National Energy Technology Lab. (NETL), Morgantown, WV (United States); Means, Nicholas C. [AECOM Technology Corp., Oak Ridge, TN (United States)

    2015-04-23

    in process piping and materials, in excessive off-gas absorbent loading, and in undesired process emissions. The ash content of the coal is important as the ash adds to the DMR and other vessel products which affect the final waste product mass and composition. The amount and composition of the ash also affects the reaction kinetics. Thus ash content and composition contributes to the mass balance. In addition, sodium, potassium, calcium, sulfur, and maybe silica and alumina in the ash may contribute to wall-scale formation. Sodium, potassium, and alumina in the ash will be overwhelmed by the sodium, potassium, and alumina from the feed but the impact from the other ash components needs to be quantified. A maximum coal particle size is specified so the feed system does not plug and a minimum particle size is specified to prevent excess elutriation from the DMR to the Process Gas Filter (PGF). A vendor specification was used to procure the calcined coal for IWTU processing. While the vendor supplied a composite analysis for the 22 tons of coal (Appendix A), this study compares independent analyses of the coal performed at the Savannah River National Laboratory (SRNL) and at the National Energy Technology Laboratory (NETL). Three supersacks a were sampled at three different heights within the sack in order to determine within bag variability and between bag variability of the coal. These analyses were also compared to the vendor’s composite analyses and to the coal specification. These analyses were also compared to historic data on Bestac coal analyses that had been performed at Hazen Research Inc. (HRI) between 2004-2011.

  3. Gait asymmetry: composite scores for mechanical analyses of sprint running.

    Science.gov (United States)

    Exell, T A; Gittoes, M J R; Irwin, G; Kerwin, D G

    2012-04-01

    Gait asymmetry analyses are beneficial from clinical, coaching and technology perspectives. Quantifying overall athlete asymmetry would be useful in allowing comparisons between participants, or between asymmetry and other factors, such as sprint running performance. The aim of this study was to develop composite kinematic and kinetic asymmetry scores to quantify athlete asymmetry during maximal speed sprint running. Eight male sprint trained athletes (age 22±5 years, mass 74.0±8.7 kg and stature 1.79±0.07 m) participated in this study. Synchronised sagittal plane kinematic and kinetic data were collected via a CODA motion analysis system, synchronised to two Kistler force plates. Bilateral, lower limb data were collected during the maximal velocity phase of sprint running (velocity=9.05±0.37 ms(-1)). Kinematic and kinetic composite asymmetry scores were developed using the previously established symmetry angle for discrete variables associated with successful sprint performance and comparisons of continuous joint power data. Unlike previous studies quantifying gait asymmetry, the scores incorporated intra-limb variability by excluding variables from the composite scores that did not display significantly larger (pcomposite scores and the magnitude of asymmetry observed for each measure varied on an individual participant basis. The new composite scores indicated the inter-participant differences that exist in asymmetry during sprint running and may serve to allow comparisons between overall athlete asymmetry with other important factors such as performance.

  4. Genotyping analyses of tuberculosis transmission among immigrant residents in Italy.

    Science.gov (United States)

    Franzetti, F; Codecasa, L; Matteelli, A; Degli Esposti, A; Bandera, A; Lacchini, C; Lombardi, A; Pinsi, G; Zanini, F; El-Hamad, I; Gori, A

    2010-08-01

    We used DNA fingerprinting to analyse tuberculosis (TB) epidemiology in immigrant patients living in two major northern Italian urban areas. The study population included 1999 TB patients (1500 Italian-born and 499 immigrants). Univariate and multivariate logistic regression models were used to identify risk factors related to clustering similar proportions of immigrant and Italian-born patients (46%) had infection with TB strains that belonged to genetic clusters. This supports the hypothesis that the disease in foreign patients is more likely to have arisen from reactivation of latent infection acquired in the country of origin than from recent transmission. Gender, age, human immunodeficiency virus infection and drug resistance were not significantly linked to TB clustering. Risk factors associated with strain clustering were country of origin (Somalia, adjusted OR (AOR) 3.19, p 0.017; Peru, AOR 2.86, p 0.014; and Senegal, AOR 2.60, p 0.045) and city of residence. Immigrant status in the larger urban area was an independent risk factor for infection with clustered TB, as reinforced by a subanalysis of the Senegalese group. In conclusion, variations in TB transmission were observed among immigrants from different countries and even within national groups, where living conditions have been found to exert a profound impact. These results emphasize the importance of improving social integration of immigrant subjects in order to limit risks of TB transmission in developed countries. PMID:19832707

  5. Staff Association

    CERN Multimedia

    Staff Association

    2014-01-01

    Remove of the staff association office   The Staff Association offices are going to be renovated during the coming four months, February to May 2014. The physical move from our current premises 64/R-002 to our temporary office in  510/R-010 will take place on Friday January 31st, so the Secretariat will be closed on that day. Hence, from Monday February 3rd until the end of May 2014 the Staff Association Secretariat will be located in 510/R-010 (entrance just across the CERN Printshop).    

  6. Faut-il continuer à faire de l'analyse de discours ?

    OpenAIRE

    Reboul, Anne; Moeschler, Jacques

    1996-01-01

    Cet article porte sur la légitimité de l'analyse de discours. Nous avons l'intention de montrer ici que l'analyse de discours repose sur une hypothèse éminement contestable et que la notion de cohérence, qui lui est étroitement associée, est, au mieux, une notion pré-scientifique. Nous essaierons de montrer qu'une approche réductionniste du discours serait tout à la fois préférable d'un point de vue scientifique et plus efficace. En conclusion, nous esquisserons une conception alternative du ...

  7. Alzheimer's Association

    Science.gov (United States)

    ... will not share your information. * Required. View archives. Alzheimer's impact is growing Alzheimer's disease is the sixth- ... Last Updated: Our vision is a world without Alzheimer's Formed in 1980, the Alzheimer's Association advances research ...

  8. 教练带你感受美国PGA Merchandise Show

    Institute of Scientific and Technical Information of China (English)

    姚奕群

    2006-01-01

    @@ 曾经,如果你想提高自己的球技,要么你就得是个天才,要么你就得指望遇上个"高手",然后得到他心传口授的"秘诀",这样你才能因他的指点而成绩突飞猛进.

  9. VizieR Online Data Catalog: Variability of the PGa star HD 19400 (Hubrig+, 2014)

    Science.gov (United States)

    Hubrig, S.; Castelli, F.; Gonzalez, J. F.; Carroll, T. A.; Ilyin, I.; Schoeller, M.; Drake, N. A.; Korhonen, H.; Briquet, M.

    2014-07-01

    Table 3 contains line by line abundances of HD19400 from the ATLAS12 model with parameters Teff=13500K and logg=3.9. The spectropolarimetric observations of HD 19400 have been obtained with the HARPS instrument attached to ESO's 3.6m telescope at La Silla during 3 nights: 2011-12-15, 2011-12-16, and 2013-07-19. (2 data files).

  10. Understanding the magnitude dependence of PGA and PGV in NGA-West 2 data

    Science.gov (United States)

    Baltay, Annemarie S.; Hanks, Thomas C.

    2014-01-01

    The Next Generation Attenuation‐West 2 (NGA‐West 2) 2014 ground‐motion prediction equations (GMPEs) model ground motions as a function of magnitude and distance, using empirically derived coefficients (e.g., Bozorgniaet al., 2014); as such, these GMPEs do not clearly employ earthquake source parameters beyond moment magnitude (M) and focal mechanism. To better understand the magnitude‐dependent trends in the GMPEs, we build a comprehensive earthquake source‐based model to explain the magnitude dependence of peak ground acceleration and peak ground velocity in the NGA‐West 2 ground‐motion databases and GMPEs. Our model employs existing models (Hanks and McGuire, 1981; Boore, 1983, 1986; Anderson and Hough, 1984) that incorporate a point‐source Brune model, including a constant stress drop and the high‐frequency attenuation parameter κ0, random vibration theory, and a finite‐fault assumption at the large magnitudes to describe the data from magnitudes 3 to 8. We partition this range into four different magnitude regions, each of which has different functional dependences on M. Use of the four magnitude partitions separately allows greater understanding of what happens in any one subrange, as well as the limiting conditions between the subranges. This model provides a remarkably good fit to the NGA data for magnitudes from 3ground‐motion models and data, which play an important role in understanding small‐magnitude data, for which the corner frequency is masked by the attenuation of high frequencies. That this simple, source‐based model matches the NGA‐West 2 GMPEs and data so well suggests that considerable simplicity underlies the parametrically complex NGA GMPEs.

  11. RAPID RADIOCHEMICAL ANALYSES IN SUPPORT OF FUKUSHIMA NUCLEAR ACCIDENT

    Energy Technology Data Exchange (ETDEWEB)

    Maxwell, S.

    2012-11-07

    There is an increasing need to develop faster analytical methods for emergency response, including emergency soil and air filter samples. The Savannah River National Laboratory (SRNL) performed analyses on samples received from Japan in April, 2011 as part of a U.S. Department of Energy effort to provide assistance to the government of Japan, following the nuclear event at Fukushima Daiichi, resulting from the earthquake and tsunami on March 11, 2011. Of particular concern was whether it was safe to plant rice in certain areas (prefectures) near Fukushima. The primary objectives of the sample collection, sample analysis, and data assessment teams were to evaluate personnel exposure hazards, identify the nuclear power plant radiological source term and plume deposition, and assist the government of Japan in assessing any environmental and agricultural impacts associated with the nuclear event. SRNL analyzed approximately 250 samples and reported approximately 500 analytical method determinations. Samples included soil from farmland surrounding the Fukushima reactors and air monitoring samples of national interest, including those collected at the U.S. Embassy and American military bases. Samples were analyzed for a wide range of radionuclides, including strontium-89, strontium-90, gamma-emitting radionuclides, and plutonium, uranium, americium and curium isotopes. Technical aspects of the rapid soil and air filter analyses will be described. The extent of radiostrontium contamination was a significant concern. For {sup 89,90}Sr analyses on soil samples, a rapid fusion technique using 1.5 gram soil aliquots to enable a Minimum Detectable Activity (MDA) of <1 pCi {sup 89,90} Sr /g of soil was employed. This sequential technique has been published recently by this laboratory for actinides and radiostrontium in soil and vegetation. It consists of a rapid sodium hydroxide fusion, pre-concentration steps using iron hydroxide and calcium fluoride precipitations, followed

  12. Observational Calculi and Association Rules

    CERN Document Server

    Rauch, Jan

    2013-01-01

    Observational calculi were introduced in the 1960’s as a tool of logic of discovery. Formulas of observational calculi correspond to assertions on analysed data. Truthfulness of suitable assertions can lead to acceptance of new scientific hypotheses. The general goal was to automate the process of discovery of scientific knowledge using mathematical logic and statistics. The GUHA method for producing true formulas of observational calculi relevant to the given problem of scientific discovery was developed. Theoretically interesting and practically important results on observational calculi were achieved. Special attention was paid to formulas - couples of Boolean attributes derived from columns of the analysed data matrix. Association rules introduced in the 1990’s can be seen as a special case of such formulas. New results on logical calculi and association rules were achieved. They can be seen as a logic of association rules. This can contribute to solving contemporary challenging problems of data minin...

  13. SENSITIVITY ANALYSIS FOR SALTSTONE DISPOSAL UNIT COLUMN DEGRADATION ANALYSES

    Energy Technology Data Exchange (ETDEWEB)

    Flach, G.

    2014-10-28

    PORFLOW related analyses supporting a Sensitivity Analysis for Saltstone Disposal Unit (SDU) column degradation were performed. Previous analyses, Flach and Taylor 2014, used a model in which the SDU columns degraded in a piecewise manner from the top and bottom simultaneously. The current analyses employs a model in which all pieces of the column degrade at the same time. Information was extracted from the analyses which may be useful in determining the distribution of Tc-99 in the various SDUs throughout time and in determining flow balances for the SDUs.

  14. Analysing harmonic motions with an iPhone’s magnetometer

    Science.gov (United States)

    Yavuz, Ahmet; Kağan Temiz, Burak

    2016-05-01

    In this paper, we propose an experiment for analysing harmonic motion using an iPhone’s (or iPad’s) magnetometer. This experiment consists of the detection of magnetic field variations obtained from an iPhone’s magnetometer sensor. A graph of harmonic motion is directly displayed on the iPhone’s screen using the Sensor Kinetics application. Data from this application was analysed with Eureqa software to establish the equation of the harmonic motion. Analyses show that the use of an iPhone’s magnetometer to analyse harmonic motion is a practical and effective method for small oscillations and frequencies less than 15-20 Hz.

  15. Fusion cross sections from Los Alamos R-matrix analyses

    International Nuclear Information System (INIS)

    We have been using R-matrix theory many years at Los Alamos to describe reactions in light systems, especially those containing fusion reactions. The theory is ideally suited for describing the resonances that are usually seen in light-element reactions, and at the same time it builds in the correct energy dependence of the transition matrix elements at low energies by making explicit use of the solutions for the external parts of the interaction. Thus, the method gives reliable extrapolations to low energies for both neutron- and charged-particle-induced reactions. We will present here the results of analysis that have been done, or are in progress, for reactions in the four- and five-nucleon systems, containing the fusion reactions of major interest: T(d,n)4He, 3He,D(d, p)T, and D(d,n)3He. These analyses contain all possible types of data that have been measured for the two-body reactions of these systems, a method that we have found crucial for determining their true resonant structures, and for ensuring reliable R-matrix interpolations and extrapolations of even the cross-section data. Integrated cross sections will be presented in the form of astrophysical S-functions, as functions of center-of-mass energy, in order that their low energy behavior might be better displayed. In addition to the R-matrix results, we will also show earlier cross-section parametrizations by Duane and Peres that still are used widely within the function reactor community. Some severe shortcomings of these earlier data sets are revealed by comparison with modern measurements and with the R-matrix calculations. More details about these comparisons and useful representations of the R-matrix cross sections and their associated reactivities () recommended for use in fusion reactor design are given in a paper by Bosch and Hale has been submitted for publication

  16. Apocrine-eccrine carcinomas: molecular and immunohistochemical analyses.

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    Long P Le